Selenoprotein evolution: introduction
Introduction to selenoprotein evolution
(other selenoproteins shortly)
Selenoprotein SELU: 3 paralogs, variable timing losses
SELU: This family consists of three deeply diverged (distinct exon patterns) paralogs. The encoding gene has 5 average exons with anomalously short introns like many selenoproteins. In the SELU1 group, selenocysteine occurs in a UxxC motif already in the earliest deuterostome but drops out in mammals after monotremes, being replaced by CxxC in marsupials and placentals. Amphibia separately lost selenocysteine.
The second paralog SELU2 has selenocysteine in bilaterans only to the node of sea urchin, suggesting it was lost early in the deuterostome ancestor. It is the closer paralog of SelU1, 36% vs 27% percent identity. No vestigal SECIS element persists in living species that encode cysteine. (The decayed SECIS elements still identifiable in 3' UTR of cysteine-containing GPX6 genes in rodents and human GPX5 represent much more recent loss of selenocysteine.)
The third paralog SELU3 has cysteine in all species for which a sequence is available. It might be called virtual selenoprotein supposing orthologs in early diverging eukaryotes could be located that contained selenocysteine. This would suggest a scenario in which selenocysteine was present in an ancestral gene prior to gene duplications followed by conversion to cysteine in different phylogenetic patterns within each gene subfamily.
This family exhibits the "selenocysteine rachet": if selenocysteine happens to be replaced by ordinary cysteine (despite catalytic inferiority) in some stem lineage, the unselected 3' UTR SECIS element then deteriorates over a few million years from accrued mutations, for the same reason (lack of purifying selection) the crayfish in the cave loses its imaging opsins. Consequently the whole following clade will contain cysteine -- a reversion to TGA at the cystein codon might occur but it would simultaneously require a multi-step reversion or de novo evolution of a SECIS element, ie all SECIS elements are ancient and selenocysteines cannot wink back on paraphyletically. (However the overall selenoproteome can still increase over time because of gene duplications elsewhere.)
A phylogenetic overview of the occurence of selenocysteine in SELU1 in 38 vertebrates:
.........................*..... C Homo sapiens genome EPRTFKAKELWEKNGAVIMAVRRPGcFLCRE C Pan troglodytes AACZ02115591 EPRTFKAKELWEKNGAVIMAVRRPGCFLCRE C Pongo abelii ABGA01228099 EPRTLKAKELWEKNGAVIMAVRRPGCFLCRE C Macaca mulatta AANU01282766 EPRTLKAKELWEKNGAVIMAVRRPGCFLCRE C Microcebus murinus ABDC01489848 EPRTFKAKELWEKNGAVIMAVRRPGCFLCRE C Otolemur garnettii AAQR01538573 EPRTFKAKELWEKNGAVIMAVRRPGCFLCRE C Tupaia belangeri AAPY01309022 EPRTFKAKELWGERGAVIMAVRRPGCFLCRE C Mus musculus AAHY01113156 EPRTFKAKELWEKNGAVIMAVRRPGCFLCR. C Rattus norvegicus AAHX01086750 EPRTFKAKELWEKNGAVIMAVRRPGCFLCR. C Spermophilus tridec AAQQ01288000 EPRTFKAKELWEKSGAVIMAVRRPGCFLCRE C Cavia porcellus AAKN02044618 EPRTFKAKELWEKNGAVIMAVRRPGCFLCRE C Oryctolagus cuniculus AAGW01591660 EPRTFKAKELWEKNGAVIMAVRRPGCFLCRE C Canis familiaris AAEX02011808 EPRTFKAKELWEKNGAVIMAVRRPGCFLCRE C Bos taurus AAFC03065652 ...TFKAKALWEKNGAVIMAVRRPGCFLCRE C Equus caballus AAWR02000382 EPRTFKAKELWEKNGAVIMAVRRPGCFLCRE C Myotis lucifugus AAPE01631988 EPRTFKAKELWEEKGAVIMAVRRPGCFLCRE C Sorex araneus AALT01607337 zPKTFKAKELWSKSGAVIMAVRRPGCFLCRE C Boreoeuthere ancestralis ancestral EPRTFKAKELWEKNGAVIMAVRRPGcFLCRE C Echinops telfairi AAIY01623759 ...TFQSKGALGKNGAVIMAVRRPGCFLCRE C Dasypus novemcinctus AAGV01392885 EPRTFKAKELWEKNGAVIMAVRRPGCFLCRE C Monodelphis domestica AAFR03024314 SPKTFKARELWEHRGAVIMAVRRPGCFLCRE C Trichosurus vulpecula transcript SPKTFKARELWEHRGAVIMAVRRPGCFLCRE C Macropus eugenii genome ..KTFKARELWEHRGAVIMAVRRPGCFLCRE U Ornithorhynchus anatin AAPN01249400 EPRTFKARELWQRNGAVIMAVRRPGUFLCRE U Tachyglossus aculeatus genome EPRTFKARELWQRNGAVIMAVRRPGUFLCRE U Anolis carolinensis AAW.01013574 ..RTFKAEELWKKNGAVIMAVRRPGUFLCRE U Gallus gallus AADN02035315 EPRTFKASELWKKNGAVIMAVRRPGUFLCRE U Taeniopygia guttata genome EKRTFKAGELWKQNGAVIMAVRRPGUFLCRE C Xenopus tropicalis genome EPKSFKAKDLWEKNGAVVMAVRRPGCFLCRE C Xenopus laevis transcript EPRLFKAKDLWERDGAVIMAVRRPGCFLCRE U Danio rerio CAAK04015812 DDRVFKARELWESSGAVIMAVRRPGUFMCRE U Tetraodon nigroviridis CAAE01014976 ETKTFKAKTLWEKCGAVVMAVRRPGUFLCRE U Fugu rubripes CAAB01000016 ETKTFKAKSLWENSGAVVMAVRRPGUFLCRE U Gasterosteus aculeatus AANH01005113 ...VIKGRSLWDKNGAVVMAVRRPGUFLCRE U Oryzias latipes BAAE01190338 DTKIIKAKSLWDKNGAVVMAVRRPGUFLCRE U Fundulus heteroclitus transcript .....KAKSLWEKNGAVVMAVRRPGUFLCRE U Oncorhynchus mykiss CR369769 .....KAKALWEKTGAVVMAVRRPGUFLCRE U Callorhinchus milii AAVX01258517 ENRTFRASELWAGRGAVIMAVRRPGUFLCRE C Gasterosteus aculeatus AANH01005113 ......AKTLWDKTGAVVMVVRRPGCLLCRE (anomalous gene duplication with cysteine)
Selenoprotein SEPW1: small protein with an odd paralog
Selenoprotein SEPW1 is one of the shortest known mammalian proteins at 87 aa. With its CxxU motif, it is likely limited to simple redox reactions. Curiously, despite the small size protein still has 5 coding exons. One of these is of relatively recent origin because chondrichtyes and telost fish have the second and third exons fused (which, given the tree and extreme rarity of intron gain/loss must be the ancestral condition. (more shortly)
Reference sets of vertebrate selenoproteins
SELU1: 13 vertebrate sequences
>SELU1_homSap Homo sapiens (human) processed pseudogenes chr8 and chr12 0 MSFLQDPSFFTMGMWSIGAGALGAAALALLLANTDVFLSKPQKAALEYLEDIDLKTLEK 1 2 EPRTFKAKELWEKNGAVIMAVRRPGcFLCREE 0 0 AADLSSLKSMLDQLGVPLYAVVKEHIRTEVKDFQPYFKGEIFLDEK 0 0 KKFYGPQRRKMMFMGFIRLGVWYNFFRAWNGGFSGNLEGEGFILGGVFVVGSGKQ 0 0 GILLEHRENEFGDKVNLLSVLEAAKMIKPQTLASEKK* 0 >SELU2_homSap Homo sapiens (human) 7 exons chr1p36.32 36% id NM_152371 0 MSTVDLARVGACILKHAVTGE 0 0 AVELRSLWREHACVVAGLRRFGCVVCRWIAQDLSSLAGLLDQHGVRLVGVGPEALGLQEFLDGDYFAG 1 2 ELYLDESKQLYKELGFKR 2 1 YNSLSILPAALGKPVRDVAAK 0 0 AKAVGIQGNLSGDLLQSGGLLVVSK 1 2 GGDKVLLHFVQKSPGDYVPKEHILQVLGISAEVCASDPPQ 0 0 CDREV* 0 >SELU3_homSap Homo sapiens (human) 6 exons chr9q22.32 25% id processed pseudogene chrX 0 MAAPAPVTRQVSGAAALVPAPSGPDSGQPLAAAVAELPVLDARGQRVPFGALFRERRAVVVFVR 0 0 HFLCYICKEYVEDLAKIPRSFLQ 0 0 EANVTLIVIGQSSYHHIE 0 0 PFCKLTGYSHEIYVDPEREIYKRLGMKRGEEIASS 1 2 GQSPHIKSNLLSGSLQSLWRAVTGPLFDFQGDPAQQGGTLILGP 1 2 GNNIHFIHRDRNRLDHKPINSVLQLVGVQHVNFTNRPSVIHV* 0 >SELU1_borAnc Boreoeuthere ancestralis (northern beast) 5 exons no selenocyseine 0 MSFLQDPSFFTMGMWSIGAGALGAAALALLLANTDVFLSKPQKAALEYLEDIDLKTLEK 1 2 EPRTFKAKELWEKNGAVIMAVRRPGcFLCREV 0 0 AADLSSLKPKLDELGVPLYAVVKEHIRTEVKDFQPYFKGEIFLDEK 0 0 KKFYGPQRRKMMFMGFVRLGVWYNFFRAWNGGFSGNLEGEGFILGGVFVVGPGKQ 0 0 GILLEHREKEFGDKVNPVSVLEAARKIKPQTSASEKK* 0 >SELU1_triVul Trichosurus vulpecula (brushtail opossum) EC360881 0 MSFLDLSFFSMGMWSLGAGALGAAVLSLILANTNLFLTKSVTATLEFLEEIELKTLDN 1 2 ESPKTFKARELWEHRGAVIMAVRRPGCFLCREE 0 0 AAELSALKPQLDQLGIPLYAVVKEKIGSEVENFQPYFKGKIFLDER 0 0 KKFYGPQKRKMMFMGFVRLGVWQNFFRARSKGFSGNLEGEGFILGGVYVIGPGKQ 0 0 GILLEHREKEFGDKVDPASVLEAA * 0 >SELU1_macEug Macropus eugenii (tammar wallaby) EX196548 full 0 MSFLDLSFLSMGMWSLGAGALGAAVLSLILANTDVFLTKSVTATLEFLEDIELKTLDN 1 2 KTFKARELWEHRGAVIMAVRRPGCFLCREE 0 0 AADLSALKPQLDQLGIPLYAVVKEKIGSEVEDFQPYFKGKIFLDER 0 0 KKFYGPQKRKMMFMGFVRLGVWQNFFRARSKGFSGNLEGEGFILGGVYVIGPRKQ 0 0 GILLDHREKELGDKVNPASVLEACKKIKLHA* 0 >SELU1_monDom Monodelphis domestica (opossum) tgt-cys 0 MSFLDLNFFSMSMWSLGAGALGAAALSLILANTDLFLTKSVDATLEFLEEIQLKTLDN 1 2 ESPKTFKARELWEHRGAVIMAVRRPGCFLCREV 0 0 AADLSALKPQLDLLGVPLYAVVKEKIGSEVENFQPYFKGKIFLDER 0 0 KKFYGPQKRKMMFMGFVRLGVWQNFFRARSKGFSGNLEGEGFVLGGVYVIGPGKQ 0 0 GILLEHREKEFGDKVNPASVLEAAKKIKPHTSTSEGK* 0 >SELU1_oan data Ornithorhynchus anatinus (platypus) taa early stop full 0 MPLPPDLGLFNLGMWSVGVGALGAAAVGLLLANTDLLLTKPEKATLEYLEDTELKTLGK 1 2 EPRTFKARELWQRNGAVIMAVRRPGuFLCREE 0 0 AAELSSLKPQLDRLGVPLYAVVKEKIGTEVEDFQPYFKGEIFLDER 0 0 KKFYGPHKRKMLFLGFIRLGVWQNFLRARNRGFSGNLEGEGLILGGVYVLGAGKQ 0 0 GILLEHREREFGDKVSPASVLEAAQRIKPQPL* 0 >SELU1_tacAcu Tachyglossus aculeatus (echidna) 454:EUEMSW405C31QQ (74%) tSASEKK terminus? frag 0 1 2 EPRTFKARELWQRNGAVIMAVRRPGuFLCREE 0 0 AAELSSLKPQLDQLGVPLYAVVKENIGTEVEDFQPYFKGEIFLDER 0 0 KRFYGPHKRKMLFLGLIRLGVWQNFIRARNKGFPPVTWEGEG 0 0 GVLLEHREREFGDKVSPASVLEAAQKIKPQ* 0 >SELU1_gga Gallus gallus (chicken) 0 MSFLPDFGIFTMGMWSVGLGAVGAAITGIVLANTDLFLSKPEKATLEFLEAIELKTLGS 1 2 EPRTFKASELWKKNGAVIMAVRRPGuFLCREE 0 0 ASELSSLKPQLSKLGVPLYAVVKEKIGTEVEDFQHYFQGEIFLDEK 0 0 RSFYGPRKRKMMLSGFFRXGVWQNFFRAWKNGYSGNLEGEGFTLGGVYVIGAGRQ 0 0 GVLLEHREKEFGDKVSLPSVLEAAEKIKPQAS* 0 >SELU1_tgu Taeniopygia guttata (finch) 0 msflpdfgiFTMGMWSVGLGAIGAAVTGIVLANTDLFLSKPEKATLEFLEEIELKTLGS 1 2 EKRTFKAGELWKQNGAVIMAVRRPGuFLCREE 0 0 ASELSSLKPQLSKLGVPLYAVVKENIGTEVEDFQHYFKGEIFLDEK 0 0 KGFYGPRRRKMMLSGFFRLGVWQNFVRAWRSGYSGNLEGEGFTLGGVYVIGAGRQ 0 0 GVLLEHREKEFGDKVSLPSVLEAAEKIKPQAS* 0 >SELU1_anoCar Anolis carolinensis (lizard) 0 MWTIGLGAIGAAVTGIILANTDLFLSKAEQASLDFLEAIDLKTLGE 1 2 NQRTFKAEELWKKNGAVIMAVRRPGuFLCREV 0 0 AAELSSLKPQLDKLGVPLYAVVKENLGTEVMDFQPYFKGEIFLDEK 0. 0 KQFYGPQKRKMLFMGFIRCSVWRNFFRAWKSGYTGNIDGEGFVLGGVFVVGPGKQ 0 0 GVLLEHREKEFGDKVSLDAVLEAVKNIQPQPSEKDK* 0 >SelU1_fugRer Fugu rubripes (fugu) 0 MGLLAKLLAAVGGFVTAVMNSVTDAFLTPPLRATLEHLEETDLKTLSG 1 2 ALVIRLIPTRTETKTFKAKSLWENSGAVVMAVRRPGuFLCRE 0 0 EAAELSSLKPRLDQLGVPLYAVVKEDVGTEIQNFRPYFQGEIFLDEK 0 0 RRFYGPRERKMGLLGFLRVGVWMNGLRAFRSGFMGNVLGEGFVLGGVFVIGREQQ 0 0 GILLEHREREFGDKVNIEDVIQAVDRIAQELMPVTQN* 0 >SELU1_gasAcu Gasterosteus aculeatus (stickleback) chrVI.790.1 length=214 MGMWSLGLGAVGAALAGIFLANTDLCLPKAASASLENLEDADLRS KGRSLWDKNGAVVMAVRRPGuFLCREV ASGLSSLKPQLEELGVPLVAVVKEDVGTEIRDFRPHFAGDIFIDEK SFYGPLQRKMGGLGFIRLGVWQNFMRAWRSGYQGNMNGEGFILGGVFVFGAGNQ GILLEHREKEFGDKVQIADVLEAVKKIVPAK* >SELU1_calMil Callorhinchus milii (elephantfish) frag 2 ENRTFRASELWAGRGAVIMAVRRPGuFLCRE 0 0 AAALSSLRPSLAQLGVPL 0 GHLLEHREKEFGDAVNLTAVMEAAGKISPRQSAE* 0 >SELU1_squAca Squalus acanthias (spiny dogfish) also selenocysteine 0 MVVVVEDFHMGLWTLGLGALGAAITGVILANTDLLLPKAETASLAYLSGAELRTLDR 1 2 EERTLKAGDLWSRSGAVIMVVRRPGuFLCREE 0 0 AAEISSLRPQLDELGVPLYGVIKENINNELKNFQPFFKGEIFLDVE 0 0 MRFYGPKPRTMGLMGFMRLGVWKNFVRAWQKGFSGNTDGEGFILgGVFVIGAGQQ 0 0 GVLLEHREKEFGDVVNISSVLEARRKIETQRTEP* 0
SEPW1: 26 vertebrate sequences
>SEPW1_homSap Homo sapiens (human) Selenoprotein W chr19 87 aa uc002phn.1 has retroprocessed pseudogene 0 MALAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGRLDI 0 0 CGEGTPQATGFFEVMVAGKLIHSKK 0 0 KGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_panTro Pan troglodytes (chimp) 0 MALAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGRLDI 0 0 RGEGTPQATGFFEVMVAGKLIHSKK 0 0 KGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_ponPyg Pongo pygmaeus (orang_sumatran) CR926472 0 MALAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGRLDI 0 0 CGEGTPQATGFFEVMVAGKLIHSKK 0 0 KGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_macMul Macaca mulatta (rhesus) 0 MALAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGRLDI 0 0 CGEGTPQATGFFEVMVAGKLIHSKK 0 0 KGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_macFas Macaca fascicularis (cynomolgus_monkey) AB169486 0 MALAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGRLDI 0 0 CGEGTPQATGFFEVMVAGKLIHSKK 0 0 KGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_papAnu Papio anubis (baboon) EY285690 0 MALAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGRLDI 0 0 CGEGTPQATGFFEVMVAGKLIHSKK 0 0 KGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_calJac Callithrix jacchus (marmoset) 0 MALTVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGRLDI 0 0 SGEGTPQATGFFEVTVAGKLIHSKK 0 0 KGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_micMur Microcebus murinus (mouse_lemur) 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGCLDI 0 0 CGEGTPQATGFFEVMVAGKLVHSKK 0 0 GDGYVDTESKFLKLV >SEPW1_musMus Mus musculus (mouse) 0 MALAVRVVYC 2 1 GAuGYKPK 0 0 YLQLKEKLEHEFPGCLDI 0 0 CGEGTPQVTGFFEVTVAGKLVHSKK 0 0 RGDGYVDTESKFRKLVTAIKAALAQCQ* 0 >SEPW1_ratNor Rattus norvegicus (rat) BC087625 0 MALAVRVVYC 2 1 GAuGYKPK 0 0 YLQLKEKLEHEFPGCLDI 0 0 CGEGTPQVTGFFEVTVAGKLVHSKK 0 0 RGDGYVDTESKFRKLVTAIKAALAQCQ* 0 >SEPW1_cavPor Cavia porcellus (guinea_pig) 0 MALAVRVVYC 2 1 GAuGYKPK 0 0 YLQLKEKLEDEFPGCLDI 0 0 CGEGTPQTTGFFEVTVAGKLVHSKK 0 0 GGDGFVDTEGKFRKLVAAIKAALAQG* 0 >SEPW1_oryCun Oryctolagus cuniculus (rabbit) 0 MALAVRVVYC 2 1 GAuGYKPK 0 0 YLQLKKKLEDEFPGCLDI 0 0 CGEGTPQVTGFFEVTVAGKLVHSKK 0 0 RGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_ochPri Ochotona princeps (pika) 0 MALSVRVVYW 2 1 GAuGYKPK 0 0 YLQLKKRLEDEFPGCLDI 0 0 GEGTPQVTGFFEVMVAGKLVHSKK 0 0 SGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_canFam Canis familiaris (dog) 0 MALAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGCLDI 0 0 RGEGTPQATGFFEVTVAGKLVHSKK 0 0 RGDGYVDTESKFLRLVAAIKTALAQG* 0 >SEPW1_felCat Felis catus (cat) 0 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGCLDI 0 0 RGEGTPQATGFFEVMVGGKLVHSKK 0 0 RGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_ bosTau Bos taurus (cow) 0 MAVVVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPSRLDI 0 0 RGEGTPQVTGFFEVFVAGKLVHSKK 0 0 GGDGYVDTESKFLKLVAAIKAALAQA* 0 >SEPW1_oviAri Ovis aries (sheep) 0 MAVVVRVVYC 2 1 GAuGYKPK 0 0 YLQLKKKLEDEFPSRLDI 0 0 CGEGTPQVTGFFEVFVAGKLVHSKK 0 0 GGDGYVDTESKFLKLVAAIKAALAQA* 0 >SEPW1_susScr Sus scrofa (pig) AF380118 0 MGVAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGRLDI 0 0 CGEGTPQVTGFFEVLVAGKLVHSKK 0 0 GGDGYVDTESKFLKLVAAIKAALAQG* 0 >SEPW1_eriEur Erinaceus europaeus (hedgehog) 0 MALAVRVVYC 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGCLDI 0 0 RGEGTPQGTGFFEVLVAGKLVHSKK 0 0 KGDGYVDTETKFLKLVTAIKAALAQG* 0 >SEPW1_sorAra Sorex araneus (shrew) 0 2 1 GAuGYKSK 0 0 YLQLKKKLEDEFPGCVDV 0 0 CGEGTPQVTGFFEVMVAGKLVHSKK 0 0 RGDGYVDSESKYVRLVTAIKTALAQA* 0 >SEPW1_Choloepus hoffmanni (sloth) 0 MALAVRVVYW 2 1 GAuGYKPK 0 0 YVQLKKKLEDEFPGCLDI 0 0 SGEGTPQTTGFFEVMVAGKLVHSKK 0 0 QKGDGFVDTESKFLRLVAAIKAALAQG* 0 >SEPW1_monDom Monodelphis domestica (opossum) diverged 0 MAIQVRVVYW 2 1 GAuGYKPK 0 0 YLLLKKKLEDEYPGLLRH 0 0 NGEGTPEVTGFFEVTVAGKLVHSKK 0 0 AGHGFVDTADKYLQIVAEIKAALA* 0 >SEPW1_ornAna Ornithorhynchus anatinus (platypus) 0 MASLEAFPRGVVPVHVVYC 2 1 GAuGYKPK 0 0 FLQLKKKLENEFPGQVEI 0 0 SGEGTPQVTGWFEVTVAGKLVHSKK 0 0 EGDGFVDSESKFAKIRMAIKAALVPGY* 0 >SELW_galGal Gallus gallus (chicken) tga confirmed 0 MPLRVTVLYC 2 1 GAuGYKPK 0 0 YERLRAELEKRFPGALEM 0 0 RGQGTQEVTGWFEVTVGSRLVHSKK 0 0 NGDGFVDTNAKLQRIVAAIQAALP* 0 >SELW_anoCar Anolis carolinensis (lizard) 1 GAuGYSPK 0 0 YQQLKRGLEKEFPGKLEI 0 0 TGEGTPQVTGWFEVTVAGKLVHSKK 0 0 NGDGFVDNDTKLHKILMAIKAALA* 0 >SELW_xenTro Xenopus tropicalis (frog) tga confirmed 0 MPDTMVKVNVVYC 2 1 GAuGYLSK 0 0 FRRLKKELEQRFPGKLSI 0 0 DGEGTERMTGWFEVSINGKLVHSKK 0 0 NGDGYVDNDAKLQKIILAIEAALKQ* 0 >SELW_danRer Danio rerio (zebrafish) tga confirmed 0 MTVKVHVVYC 2 1 GGuGYRPK 0 0 FIKLKTLLEDEFPNELEI 0 0 TGEGTPSTTGWLEVEVNGKLVHSKK 0 0 NGDGFVDSDSKMQKIVTAIEQAMGK* 0 >SEPW1_takRub 0 MGVTIRVEYC 2 1 GGuGYGPR 0 0 YEELARVVRAEFPDADVSGFVGRM 1 2 GSFEIQINEQLIFSKLETGGFPYEDD 0 >SEPW2_calMil Callorhinchus milii (elephantfish) 1 GAuGYEPRYQKLAIVIKDEFPDADVSGKVGRT 1 2 GSFEIEINGQLIFSKLETGGFPYEND 0 0 ISEAVQKANNGEELQKIENSRPPCVIL* 0 0 VMHAIQCVSDGKPVEKITKSRPPCVIM* 0
DIO1, DIO2, and DIO3: 24 vertebrate iodothyronine deiodinases
>DIO1_homSap Homo sapiens (human) iodothyronine deiodinase type I; 4 exons on chr1p32.3 0 MGLPQPGLWLKRLWVLLEVAVHVVVGKVLLILFPDRVKRNILAMGEKTGMTRNPHFSHDNWIPTFFSTQYFWFVLKVRWQRLEDTTELGGLAPNCPVVRLSGQRCNIWEFMQ 1 2 GNRPLVLNFGSCTuPSFMFKFDQFKRLIEDFSSIADFLVIYIEEAHAS 1 2 DGWAFKNNMDIRNHQNLQDRLQAAHLLLARSPQCPVVVDTMQNQSSQLYAALPERLYIIQEGRILYK 0 0 GKSGPWNYNPEEVRAVLEKLHS 0*
>DIOI_ratNor Rattus norvegicus (rat) 7-258 thioredoxin-like MGLSQLWLWLKRLVIFLQVALEVATGKVLMTLFPERVKQNILAMGQKTGMTRNPRFAPDNWVPTFFSIQY FWFVLKVRWQRLEDRAEYGGLAPNCTVVRLSGQKCNVWDFIQGSRPLVLNFGSCTuPSFLLKFDQFKRLV DDFASTADFLIIYIEEAHATDGWAFKNNVDIRQHRSLQDRLRAAHLLLARSPQCPVVVDTMQNQSSQLYA ALPERLYVIQEGRICYKGKPGPWNYNPEEVRAVLEKLCIPPGHMPQF
>DIO1_susScr Sus scrofa (pig) MELPLPGLWLKRLWVLFQVALHVAMGKVLMTLFPGRVKQDILAMSQKTGMAKNPHFSHENWIPTFFSAQY FWFVLKVRWQRLEDKTEEGGLAPNCPVVSLSGQRCHIWDFMQGNRPLVLNFGSCTUPSFIFKFDQFKRLI EDFSSIADFLIIYIEEAHASDGWAFKNNVDIKNHQNLQDRLRAAHLLLDRSPQCPVVVDTMKNQSSRLYA ALPERLYVLQAGRILYKGKPGPWNYHPEEVRAVLEKLHS
>DIO1_sunMur Suncus murinus (shrew) MGLPGLGLLLKRFGVLVRVALKVAVGKVLLTLWPSAIRPHLLAMSEKTGMAKNPRFTYEDWAPTFFSTQY FWFVLKVNWQQLEDRTKQGDIAPDSPVVHLSGQRARLWDFMQGNRPLVLNFGSCSuPSFLFKFDQFKRLV EDFSSVADFLTVYIEEAHASDGWAFKNNVDIRRHRDLQERLQAARLLLDRNPGCPVVVDTMENRSSQLYA ALPERLYVLQEGRILYKGGPGPWNYHPEEVHAVLEQLCRSSAQSPRL
>DIO1_galGal Gallus gallus (chicken) Type I iodothyronine deiodinase 4 exons chr8 MLSIRVLLHKLLILLQVTLSVVVGKTMMILFPDTTKRYILKLGEKSRMNQNPKFSYENWGPTFFSFQYLLF VLKVKWRRLEDEAHEGRPAPNTPVVALNGEMQHLFSFMRDNRPLILNFGSCTuPSFMLKFDEFNKLVKDF SSIADFLIIYIEEAHAVDGWAFRNNVVIKNHRSLEDRKTAAQFLQQKNPLCPVVLDTMENLSSSKYAALP ERLYILQAGNVIYKGGVGPWNYHPQEIRAVLEKLK
>DIO1_xenTro Xenopus laevis (frog) tga confirmed MLRYIQKALILFFLFLYVVVGKVLMFLFPQTMASVLKSRFEISGVH-DPKFQYEDWGPTFFTYKFLRSVLEIMWMRLE DEAFVGHSAPNTPVVDLSGELHHIWDYLQGTRPLVLSFGSCT*PPFLFRLG EFNKLVNEFNSIADFLIIYIDEAHAADEWALKNNLHIKKHRSLQDRLAAAKRLME ESPSCPVVLDTMSNLCSAKYAA LPERLYILQEGKIIYKGKMGPWGYKPEEVCSVLEKKK*
>DIO1_danRer Danio rerio (zebrafish) MGSAVGFALRKLFVYISAVLMVCAAILQMSMLKLLSFISPGRMRKIHMKMGERSTMTQNPKFRYEDWGPA FFSLAFIKTLFFVNWCSLGLEAFEGHAAPDSALITLDRQKTSVHRFLKGNRPLVLSFGSCTuPPFLYKLD EFKQLVKDFSNVADFLIVYLAEAHATDAWAFKNNVDISVHKNLEERLAAARTLLKEDPPCPVVVDEMNNI TASKYGALPERLYVIQSGKVIYQASDLGGQA
>DIO1_tru fugu 4 exons genome glitches 0 MLLQKLAMYLSTAGLFCFMITLNVVLWILNIVAPALAKKIALKMGEKATMTQDPLFKYEDWGLTFASTALVKTASRHMWLSLGQEAFAGLEAPDSPVVTMERKRSSIGEFMK 1 2 TNRPLVLNFGSCTuPPFMFKLEEFKQLVRDFSDVADFLVVYIAEAHST 1 2 DGWAFKNNFDINQHRNLEDRLSAAQILVQKDPLCPVVVDDMNNSCAIKYGALPERLYVLQAGKVLYK 0 0 GAVGPWGYDPREVRSYLEKMK *0
>DIO2_homSap Homo sapiens (human) iodothyronine deiodinase type II; 2 exons size 8,781 bp on chr14q31.1 0 MGILSVDLLITLQILPVFFSNCLFLALYDSVILLKHVVLLLSRSKSTRGEWRRMLTSEGLRCVWKSFLLDAYKQ 0 0 VKLGEDAPNSSVVHVSSAEGGDNSGNGTQEKIAEGATCHLLDFASPERPLVVNFGSATuPPFTSQLPAFRKLVEEFSSVADFLLVYIDEAHPSDGWAI PGDSSLSFEVKKHQNQEDRCAAAQQLLERFSLPPQCRVVADRMDNNANIAYGVAFERVCIVQRQKIAYLGGKGPFSYNLQEVRHWLEKNFSKRuKKTRLAG 0*
>DIO2_ratNor Rattus norvegicus (rat) 85-253 thioredoxin-like MGLLSVDLLITLQILPVFFSNCLFLALYDSVILLKHVALLLSRSKSTRGEWRRMLTSEGLRCVWNSFLLD AYKQVKLGEDAPNSSVVHVSNPEAGNNCASEKTADGAECHLLDFACAERPLVVNFGSATuPPFTRQLPAF RQLVEEFSSVADFLLVYIDEAHPSDGWAVPGDSSMSFEVKKHRNQEDRCAAAHQLLERFSLPPQCQVVAD RMDNNANVAYGVAFERVCIVQRRKIAYLGGKGPFSYNLQEVRSWLEKNFSKRXILD
>DIO2_susScr Sus scrofa (pig) MGILSVDLLITLQILPVFFSNCLFLALYDSVILLKHVVLLLSRSKSTRGEWRRMLTSEGMRCIWKSFLLD AYKQVKLGEDAPNSSVVHVSNPEGSNNHGHGTQEKTVDGAECHLLDFANPERPLVVNFGSATUPPFTSQL PAFSKLVEEFSSVADFLLVYIDEAHPSDGWAVPGDSSLSFEVKKHQNQEDRCAAAHQLLERFSLPPQCRV VADRMDNNANVAYGVAFERVCIVQRQKIAYLGGKGPFYYNLQEVRRWLEKNFSKR
>DIO2_galGal Gallus gallus (chicken) deiodinase, iodothyronine, type II 2 exons chr5 MGLLSADLLITLQILPVFFSNCLFLALYDSVILLKHMVLFLSRSKSARGEWRRMLTSEGLRCVWNSFLLD AYKQVKLGGEAPNSSVIHIAKGNDGSNSSWKSVGGKCGTKCHLLDFANSERPLVVNFGSATuPPFTSQLS AFSKLVEEFSGVADFLLVYIDEAHPSDGWAAPGISPSSFEVKKHRNQEDRCAAAHQLLERFSLPPQCQVV ADCMDNNANVAYGVSFERVCIVQRQKIAYLGGKGPFFYNLQEVRLWLEQNFSKRUNPLSTEDLSTDVSL
>DIO2_xenTro Xenopus laevis (frog) GTRRERERLSVDLLITLQILPGFFSNCLFLALYDSVVLVKHVLLQLNRSKSSQSQWRRMLTPEGLRCVWN SFLLDAYKQVKLGQDAPNSNVIQVSNNRTSKSVQRKFAGKCHLLDFASSERPLVVNFGSATuPPFISQLP AFSKLVEEFSSVADFVLVYIDEAHPSDGWAAPGTASYEVKKHRSQEERCAAASKLLQHFSIPPQCQVVAD CMDNNANVAYGVSFERVCIVQRQKIVYLGGKGPFFYNIQEIRRWLELSFGKR
>DIO2_ranCat Rana catesbiana (bullfrog) MGLLSVDLLITLQILPGFFSNCLFLALYDSVVLVKHVLLQLNRSKSSHGQWRRMLTPEGLRCVWNSFLLD AYKQVKLGGDAPNSNVIHVTDKNSSSGKPGTPCHLLDFASSERPLVVNFGSATuPPFISQLPAFSKMVEE FSAVADFLLVYIDEAHPSDGWAAPGISSYEVKKHRNQEDRCAAANKLLEQYSLPPQCQVVADCMDNNTNA AYGVSFERVCIVQRQKIVYLGGKGPFFYNLQEVRQWLELTFGKKAESGQTGTEK
>DIO2_nfo lungfish Neoceratodus forsteri exons unknown MGLLSVDLLITLQILPWFFSNCLFLALYDSVVLLKHVILLLSCSKSSRGEWRRMLTSEGLRTVWNSFLLD AYKQVKLGGDAPNSKVVRVTSGCCRRRSFSGKGESECHLLDFASSNRPLVVNFGSATUPPFISQLPTFRK LVEEFSDVADFLLVYIDEAHPADGWAAPGVATKSFEVKKHRSQEERCVAAHKLLEHFSLPPQCQVVADCM DNNTNVAYGVSFERVCIVQRQKIAYLGGKGPFFYNLKEVRHWLEQTYRKRUVPTCELIM
>DIO2_danRer Danio rerio (zebrafish) MGLLSVDLLVTLQILPGFFSNCLFFVLYDSIVLVKRVVSLLSCSGSTGEWQRMLTTAGVRSIWNSFLLDA YKQVKLGEAAPNSKVVKVTGINRCWSISGKTHNQCHLLDFESPDRPLVVNFGSATuPPFISQLPVFRRMV EEFSDVADFLLVYIDEAHPSNGWVGPP MENFSFEVRKHRNLEERM FAARTLLEHFSLPPQCQLVADCM DNNANIAYGVSYERVCIVQKNKIAYLGGKGPFFYNLKDVRRWLEKC
>DIO3_homSap Homo sapiens (human) size iodothyronine deiodinase type III; 1 exon 2,502 bp chr14q32.31 0 MLRSLLLHSLRLCAQTASCLVLFPRFLGTAFMLWLLDFLCIRKHFLGRRRRGQPEPEVEL NSEGEEVPPDDPPICVSDDNRLCTLASLKAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGF QSQHILDYAQGNRPLVLNFGSCTuPPFMARMSAFQRLVTKYQRDVDFLIIYIEEAHPSDG WVTTDSPYIIPQHRSLEDRVSAARVLQQGAPGCALVLDTMANSSSSAYGAYFERLYVIQS GTIMYQGGRGPDGYQVSELRTWLERYDEQLHGARPRRV 0*
>DIO3_ratNor Rattus norvegicus (rat) 103-266 thioredoxin-like MLRSLLLHSLRLCAQTASCLVLFPRFLGTAFMLWLLDFLCIRKHFLRRRHPDHPEPEVELNSEGEEMPPD DPPICVSDDNRLCTLASLKAVWHGQKLDFFKQAHEGGPAPNSEVVRPDGFQSQRILDYAQGTRPLVLNFG SCTuPPFMARMSAFQRLVTKYQRDVDFLIIYIEEAHPSDGWVTTDSPYVIPQHRSLEDRVSAARVLQQGA PGCALVLDTMANSSSSAYGAYFERLYVIQSGTIMYQGGRGPDGYQVSELRTWLERYDEQLHGTRPRRL
>DIO3_susScr Sus scrofa (pig) MLHSLLLHSLRLCAQTASCLVLFPRFLGTACMLWLLDFLCIRKHLLGRRRRGEPETEVELNSDGDEVPPD DPPICVSDDNRLCTLASLRAVWHGQKLDFFKQAHEGGPAPNSEVVLPDGFQNQHILDYARGNRPLVLNFG SCTUPPFMARMSAFQRLVTKYQRDVDFLIIYIEEAHPSDGWVTTDSPYSIPQHRSLEDRVSAARVLQQGA PECSLVLDTMANSSSSAYGAYFERLYVIQSGTIMYQGGRGPDGYQVSELRTWLERYDQQLHGPQPRRV
>DIO3_galGal Gallus gallus (chicken)type III iodothyronine deiodinase 1 exon chr5 11mbp separation AACILLFPRFLLTAVMLWLLDFLCIRKKMLTMPTAEEAAGAGEGPPPDDPPVCVSDSNRMFTLESLKAVW HGQKLDFFKSAHVGSPAPNPEVIQLDGQKRLRILDFARGKRPLILNFGSCToPPFMARLRSFRRLAADFV DIADFLLVYIEEAHPSDGWVSSDAAYSIPKHQCLQDRLRAAQLMREGAPDCPLAVDTMDNASSAAYGAYF ERLYVIQEEKVMYQGGRGPEGYKISELRTWLDQYKTRLQSPGAVVIQV
>DIO3_xenTro Xenopus laevis (frog) MLHCAGPHTGKLVKQVAACCLLLPRFLLTGLMLWLLDFQCIRRRVLLTAREESTAEHEDPPLCVSDSNRM CTVESLRAVWHGQKLDYFKSAHLGCSAPNTEVVMLEGRRLCKILDFSQGKRPLVVNFGSCTuPPFMARLQ AYRRLAAQHVGIADFLLVYIEEAHPSDGWLSTDASYQIPQHQCLQDRLAAAQLMLQGAPGCRVVVDTMDN SSNAAYGAYFERLYIVLEGKVVYQGGRGPEGYKISELRMWLEQYQQGLMGTKGSGQVVIQV
>DIO3_ranCat Rana catesbiana (bullfrog) MLPAPHTCCRLLQQLLACCLLLPRFLLTVLLLWLLDFPCVRRRVIRGAKEEDPGAPEREDPPLCVSDTNR MCTLESLKAVWYGQKLDFFKSAHLGGGAPNTEVVTLEGQRLCRILDFSKGHRPLVLNFGSCTuPPFMARL QAYQRLAAQRLDFADFLLVYIEEAHPCDGWLSTDAAYQIPTHQCLQDRLRAAQLMLQGAPGCRVVADTMT NASNAAYGAYFERLYVILDGKVVYQGGRGPEGYKIGELRNWLDQYQTRATGNGALVIQV
>DIO3_nfo lungfish Neoceratodus forsteri 0 MYQSSGVHTMNEVLKQAFACFILLPRFLVTALMLWLLDFLCVRRRVLLHMSRRQEASDLPDEPELCVSDS NRMFTLKSLRAVWHDQKLDFFKAAHIGLVAPNTEVIKLEGQRKAKILEFGGGKRPLILNFGSCTuPPFMARLKAFRGVATQYKDVADFLLIYIEEAHPSDGWVSTDAPYQIPKHQCLEDRLKAAQLMNLEIPGCLVVVDTMDNASNAAYGAFFERLYIVQQERVVYQGGRGPEGYKISELKNWLDQYKSQLQNSSAVVIQV 0*
>DIO3a_danRer Danio rerio (zebrafish) SALKNAAVCVLLLPRFLLAALMLCLLDFLCIRRKLLLKMQEGAFSSPDDPPLRVSDSN KMFTLESLRAVWYGQKLDfFkSARLGGAAPNTEVFPLDGDARAAERILDYARGRRPLILN FGSCSuPPFMTRLSAFQRVARQYADIADSLLVYIEEAHPSDGWVSSDAPVQIPRHRCLED RLRAAQMLHRDAAGNAGVVDSMQNS
>DIO3b_dre Danio rerio GALKNALVCLLILTRFLVAAFMLWCLDFLCVRKRVLVHLQERAYAEQEEEPL CISDSSRMFSWESLKAVFHGHKLDYMKSARLGHAAPDSEVFPLAEPRRGRVLEFARGHRP LVLSFGSCSuPPFMRRLKAFRRLVLRYADVADALLIYIEEAHPSDGWRSSDAPHQIRRHR SLEERLSAARLMEREAPGCAVVADGMENAANSAYGAYFDRLYIVQDGRVVYQ
Reference sets of vertebrate SECIS elements
SEPW1 SECIS sequences
>selW_SECIS_homSap Homo sapiens (human) agggaccttgacccagcccctctcagcagacgcttcatgataggaaggactgaaaagtcttgtggacacctggtctttccctgatgttctcgtggctgctgttgggggcagagattgacgcccccggtctttgcct >selW_SECIS_panTro Pan troglodytes (chimp) AGGGACCTTGACCCAGCCCCTCTCAGCAGACGCTTCATGATAGGAAGGACTGAAAAGTCTTGTGGACACCTGGTCTTTCCCTGATGTTCTtGTGGCTGCTGTTGGGGGCAGAGATTGACGCCCCCGGTCTTTGCCT >selW_SECIS_ponPyg Pongo pygmaeus (orang_sumatran) AGTCCAGGGACCTTGACCCAGCCCCTCTCAGCAGACGCTTCATGATAGGAAGGACTGAAAAATCTTGTGGACACCTGGTCTTTCCCTGATGTTCTCGTGGCTGCTGTTGGGGGCAGAGATTGACGCCCCTGGTCTTTGCCT >selW_SECIS_macMul Macaca mulatta (rhesus) AGcGACCTTGACCCAGCCCCTCTCAGCAGACGCTTCATGATAGGAAGGACTGAAAAGTCTTGTGGACgCCTGGTCTTTCCCTGATGTTCTCGTGGCTGCTGTTGGGGGCAGAGATTGACGCCgCtGGTCTTTGCCT >selW_SECIS_musMus Mus musculus (mouse) ACTGAAATGTCTTAGACTTGGCCCAGCCCCTCGTGGCAGACGCTTCATGATGGGAAGAACTGAAATGTCTCGTGGACGCCTGGTCTTTCCCTGATGTCCCTGCGACTGCCACGTAGGGGCAGAGACTGATGCCCCTGTGGGTGCCT >selW_SECIS_ ratNor Rattus norvegicus (rat) CCTGGCCGGCCTTTCTTGGCAGCCGCTTCATGACAGGAAGGACTGAAATGTCTCAAAGACCTGTGGTCTTTCTTCGATGTTCCTGCGGCCACCAAGTCAGGCCAGAGATGGATTCTGTGTGTGGGTGCCT >selW_SECIS_oryCun Oryctolagus cuniculus (rabbit) AGTAACCTTGACCCAGCCCCTTTCATGCCTCAGCCTCGTCTCCATAGGCTAAGACTGGAGAAATGAGTCCCCTGAAGAACTGAAACTGGGGGTAGAGGGTTGGTGTTTTAAGATGTGGATGAGCTGGTCTTTAC >selW_SECIS_canFam Canis familiaris (dog) CCAGtGACCTTGgCCCAGCCCCTCgtgGCAGACGCTTCATGATgGGAAGaACTGAAAtGTCTcGTGGACgCCTGGTCTTTCCCTGATGTccctgcgactgccacgtaGGGGCAGAGAcTGAtGCCCCtGGTCTTTGCCT >selW_SECIS_susScr Sus scrofa (pig) AGTAACCTTGACCCAGCCCCTTTCATGCCTCAGCCTCGTCTCCATAGGCTAAGACTGGAGAAGTCTTGTGGACGCCTGGTCTTTCCCTGATGTTCTCGTGGCTGCTGTTGGGGGCAGAGATGGATGAGCTGGTCTTTAC >selW_SECIS_borAnc Boreoeuthere ancestralis (ancestral) AGTCCAGCAACCTTGGCCCAGCCCCTCTCAGCAGATGCTTCATGACAGGAAGGACTGAAATGTCTTGTGGACGCCTGGTCTTTCCCTGATGTTCTTGTGGCTGCTGGTTGGGGCAGAGATTGACACCCCTGGTCTTTGCCT >selW_SECIS_dasNov Dasypus novemcinctus (armadillo) CCAGCAACCTCAGCCCAGCTGCCCTTGGCAGACGCTTCATGAGGGGAAGGACCTAAATGCGTCGTGGATGCCTGGTCTTTCCCTGATGCTCCTTCACCTGCCAGATGGGGCAGAGGTCATTGCCCCTGGTCTTGGCCT >selW_SECIS_loxAfr Loxodonta africana (elephant) GGGACCTTGGCCCAGCCCCTTTCAGCAGACACTTCATGACAGGAGGACTGAAATGTCTCCCAGACGCCTGGCTCTTTCCCTGAATCTGTCGGCTGCAGGACAGGGCAGCGGTTGACTCTCTCGTTTTTTGCAT >selW_SECIS_echTel Echinops telfairi (tenrec) AGGCCAGAGACCTTGGCCCAGTCCCTCCATGACAGGCAGAACTGAAATGTCCTCTGGACAAGTGGTCTTTTCCAGAAACCCCAGGGCTGCTGGGCCGGAGCCGAGGCTGACAACCCTGGTCTTTGCCT
SEPW1SECIS sequences
>DIO1_SECIS_homSap Homo sapiens (human) COVE score: 29 ttttaactctgtgtctttacatatttgtttatgatggccacagcctaaagtacacacggctgtgacttgattcaaaagaaaatgttataag >DIO1_SECIS_ponPyg Pongo pygmaeus (orang_sumatran) COVE score: 29 ttttaactctgtgtctttacatatttgtttatgatggccacagcctaaagtacacacggctgtgacttgattcaaaagaaaatgttataag >DIO1_SECIS_macMul Macaca mulatta (rhesus) COVE score: 29 tttcaactctgtgtctttacatatttgtttatgatggccacagcctaaagtacacacggctgtgacttgattcaaaagaaaatgttataag >DIO1_SECIS_cavPor Cavia porcellus (guinea_pig) COVE score: 24 tgttaactctgcttcttttcatatttgttcatgacggtcacagtctaaagtacacacagctgtgacctgatttgaaagaaaatgttttaag >DIO1_SECIS_canFam Canis familiaris (dog) COVE score: - ttttaactctgcttcttttcatgtttgtctatgacggccacagcctaaagcacacacagctgtgacttgatttgaaagaaaatgttttaag >DIO1_SECIS_felCat Felis catus (cat) COVE score: - ttttaactctgcttcttttcacgtttgtctatgacggccacagtctaaagtgcacacagctgtgacttgacttgaacgaaaatgttttaag >DIO1_SECIS_bosTau Bos taurus (cow) COVE score: 28 ttttaactctgcctcttttcatatttgttcatgacggccacagcctaaagtacacacggctgtgacttgatttgaaagaaaatgttttaag >DIO1_SECIS_sorAra Sorex araneus (shrew) COVE score: 24 cggaaactcagcttctcttcatatttgtttatgacagccccagctgaaagtacacacagctgtggcttgattggaaagaaaatgttttaag >DIO1_SECIS_eriEur Erinaceus europaeus (hedgehog) COVE score: 26 tttaactctgctttcttctcatatttgcttatgatggtcacagcttaaagtatacacagctgtgacttgattggaaagaaaatattttaag >DIO1_SECIS_borAnc Boreoeuthere ancestralis (ancestral) COVE score: 29 ttttaactctgcttcttttcatatttgttcatgatggccacagcctaaagtacacacggctgtgacttgatttgaaagaaaatgttttaag >DIO1_SECIS_dasNov Dasypus novemcinctus (armadillo) COVE score: - ttttaactctgcttcttttcatatttgtttatgatggccacagtttaaagtacatacagctgtgacttgatatgaaaaagaaatattttaag >DIO1_SECIS_loxAfr Loxodonta africana (elephant) COVE score: - ttttaactctgcttcttttttcatgtatttatgatgggccacagcctaaagtgcacaacagctgtgacttgatttgaaaaacatctttaag >DIO1_SECIS_monDom Monodelphis domestica (opossum) COVE score: - tttccatcctgcttctacaaatatttatttatgacaatcacagcctaaagctcagggcagctgggattcgacgggagaaaaagtttgtaag >DIO1_SECIS_ornAna Ornithorhynchus anatinus (platypus) COVE score: 24 ccccggatccggttccgtgaatattggtttatgagggtcacagtgtaaagcgcatgcagctgtgacttgatctgagaaaatatttctgcggc >DIO2_SECIS_homSap Homo sapiens (human) 5,630 bp utr COVE score: 30 cagagatgtgcagagttgaccagtgtgcggatgataactactgacgaaagagtcatcgactcagttagtggttggatgtagtcacattagtttgcctctc >DIO2_SECIS_macMul Macaca mulatta (rhesus) COVE score: 30 cagagatgtgcagagttgaccagtgtgcggatgataactactgacgaaagagtcatcgactcagttagtggttggatgtagtcacattagtttgcctctc >DIO2_SECIS_musMus Mus musculus (mouse) COVE score: 29 cggagatgttcagagctcactggtgtgcgaatgataactactgacgaaagagctgtctgctcagtctgtggttggatgtagtcacacgagtctgcctttctgca >DIO2_SECIS_ratNor Rattus norvegicus (rat) COVE score: 28 ccgagatgttcggagctcactggtgtgcgaatgataactactgacgaaagagtcatctgctcagtctgtggttggatgtagtcacacgagtctgcctctccatc >DIO2_SECIS_canFam Canis familiaris (dog) COVE score: 27 ctgggatgtgcagaggtgaccagtgtgcgaatgataactactgatgaaagagtcactgactcagttagtggttggatacagtcacattagttttcctct >DIO2_SECIS_borAnc Boreoeuthere ancestralis (ancestral) COVE score: 30 ctgggatgtgcagaggtgaccagtgtgcaaatgataactactgatgaaagagtcattgactcagttagtggttggatgtagtcacattagtttgcctctc >DIO2_SECIS_dasNov Dasypus novemcinctus (armadillo) iodothyronine deiodinase type II ctgggaagttcagaggctaccagtgtgccaatgataactactgacgaaagaggcatcgactcagttagtggttggatgtagccacattagtttgcctctc >DIO3_SECIS_homSap Homo sapiens (human) COVE score: 31 ttgggtgcacaggagccccactgctgatgacgaactatctctaactggtcttgaccacgagctagttctgaattgcaggggcctcaaagcagca >DIO3_SECIS_macMul Macaca mulatta (rhesus) COVE score: 30 ttgggtgcacaggagccccactgctgatgacgaactgtctctaactggtcttgaccacgagctagttctgaattgcaggggcctcaaaacagca >DIO3_SECIS_musMus Mus musculus (mouse) COVE score: 26 ttgggtgcgctggagccctggctgctgatgacgaaccgcctctaactgggcttgaccacgggtcggctctgaattgcagagaggctcgaaacagc >DIO3_SECIS_ratNor Rattus norvegicus (rat) COVE score: 26 ttgggtgcgctggagccctggctgctgatgacgaaccgcctctaactgggcttgaccacgggtcggctctgaattgcagagaggctcgaaacagc >DIO3_SECIS_canFam Canis familiaris (dog) COVE score: 26 ttgggtgctggcgagccccactgctgatgacgagccgcctctaactggtcttgaccacgagctggttctgagttgcaggggggcttgcagcggc >DIO3_SECIS_bosTau Bos taurus (cow) COVE score: 30 ttgggtgctcacgagccccactgctgatgaagagctgtctctaactggcctcgaccacgagctggttctgatttgcaggaggctcgcagcagc >DIO3_SECIS_borAnc Boreoeuthere ancestralis (ancestral) COVE score: 27 ttgggtgctcaggagccccactgctgatgacgaactgtctctaactggtcttgaccacgagctggttctgaattgcagggggctcgcagcagca >DIO3_SECIS_loxAfr Loxodonta africana (elephant) COVE score: 22 ttcggtgcgctagagccccactgctgatgacgaactgtctctaactggtcttgaccacgagctgattccgaattgcagggaactcgcagcagc >DIO3_SECIS_echTel Echinops telfairi (tenrec) COVE score: - ttcggtgctctgcagccccactgctgatgacgaactgcctctcactggtcttgaccacgagctgcttctgaaatgcaggggactcgcagccgca
