RetrogeneDB ID: | retro_tnig_13 | ||
Retrocopy location | Organism: | Tetraodon (Tetraodon nigroviridis) | |
| Coordinates: | 2:12303177..12305313(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSTNIG00000013943 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SLC5A3 (2 of 2) | ||
| Ensembl ID: | ENSTNIG00000014513 | ||
| Aliases: | None | ||
| Description: | solute carrier family 5 (sodium/myo-inositol cotransporter), member 3 [Source:HGNC Symbol;Acc:11038] |
Retrocopy-Parental alignment summary:
>retro_tnig_13
ATGGGTCCAGGAATGGAGGCAGCGGACATAGCCGTGGTAGCGCTGTATTTTATTCTGGTCGTTGTCATTGGGTTTCTTGC
CATGTGGAAGGCCAATCGCAGCACTGTGAGTGGCTACTTTCTGGCCGGACGCTCCATGACGTGGATAGTGATCGGGGCGT
CGCTCTTCGTCAGCAACATTGGCAGTGAACATTTCATTGGCCTGGCAGGCTCAGGAGCAGCCAGCGGCTTCGCTGTTGGA
GCATGGGAGTTTAATGCACTTCTACTTCTGCAACTGCTCGGCTGGGTATTTGTCCCCGTCTACATCCACTCGGGCGTGTA
CACCATGCCTGAGTACCTCTCCAAACGCTACGGTGGCAACAGACTGAAGGTTTACTTCGCTTTCCTGTCCGTGATGCTCT
ACATCTTTACCAAGCTCTCTGTGGACTTGTATGCTGGGGCTCTCTTTATCCAAGAGTCTTTGGGTTGGAACCTTTATCTT
TCTATACTCCTCCTCATTAGTTTGACTGCACTTCTTACTGTCACTGGTGGACTGGTGGCAGTAATGTACACTGATGCACT
TCAGGCAGTGTTGATGATTGGTGGCGCTCTAACCTTAACCGTCATGAGTTTAATTCAAGTTGGTGGGCTAGAGGGTGTCA
GAACGCGGTACATGAAGGCAGTTCCTAATGTTCCTGCTATAATTGCTTCTGGAAATTTCACGTACTCTCCTACCTGCCGC
ATTCACCCCAAAGAACACTCCTTGCGTATCCTTCGCGGTCCCCTGGATGAGGACATTCCATGGCCAGGGTTCATTCTCGG
CCAGACCCCTGCATCTATTTGGTACTGGTGCGCGGACCAGGTTATTGTTCAAAGAGTACTGGCTGCTAAGAACATTGCTC
ACGTCAAGGGTTCTACATTGATGGCCGGGTTTCTCAAAGTCCTGCCCATGTTCCTGATAGTCATTCCCGGAATGATCTCC
CGCATTATGTTTGCAGATGAGATTGCCTGCATTGGACCGGAGCACTGCATGGCTGTGTGCGGTTCTCAGGCTGGCTGCTC
AAACATCGCCTACCCTCGCCTGGTCATGGCAGTAATGCCCGTCGGACTCAGAGGTTTAATGATGGCTGTCATGCTTGCTG
CCCTGATGAGTGACCTTGACTCGATTTTTAACAGCGCTAGCACCATTTTCACTCTGGACATCTACCAAACTGTGCGAAGA
AAAGCATCCCAGCGAGAGCTGCTGATTATTGGCCGAGTATTTGTTGTGGTCATGGTGGCCATTAGCATTGCCTGGGTGCC
TGTAATTATTGAAATGCAAGGAGGGCAGACATACCTTTACATCCAGGAAGTTGCTGGCTACCTAACTCCACCAATCGCTG
CCCTCTTCCTGCTCGGTGTGTTTTGGAAGCGTTGTAATGAGAAAGGTGCATTCTGGGGAGGCATGACAGGTTTTATACTT
GGCACTCTGAGGCTGATCCTGGCTTTTATTTATCGCCAACCTCGGTGTGACCAGCCGGATGATAGGCCTGCCTTCATTGT
AAAGGTTCACTACATGTATTTTGCTGCCGGGTTGTTCTGGCTGTCAGGATTGGTAGCAGTGGTGGTCAGTCTCTGTACCT
CCCCACCAGATGATGAACAAGTTCACACCACAACAATTTGGGGCCTTCGAAACATCCAGAAGGTGCCTGCGAGGAGCAGA
GAGGAAATGTTTACGTTAACTGAGAAAAGCCCCAATAACCACGATGCAAACCTGCACAAAGAAATGCCCCCCGATGTCAG
AAATGAAAGATGTTTGGATGGAGCAGACGTCAAGCTTCTGGTCCCATCCACCGACCATGACCCAGCAACCCCCAGTACAG
AGACGTCCCCCGCCACCACGCCAGGGCAGCACTTCGGTAATGGAAAGATGGACGTGATCAAAGCAGAGCAGGGCTACCGT
GCTCACGAAGAGACTGGCAGGTGCGCACGTGTGGTGGAATGGCTGTGTGGCTACAAGGAAGGGCCCCAGGACACTCAGCA
GAAAGTCCCCCAAGACGACAAAAGGGTCATAGCAGAGATGCTGTACGAGCCTCCGAAAGTGAAAATTCTCCTAAATACAG
TTCTGGTCCTGGTCTGCATTTTGGACATCTTTATGTTTGTTTACTTCTCACTTTAG
ORF - retro_tnig_13 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.71 % |
| Parental protein coverage: | 78.93 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MELVDMAVVGLYFILVLAIGLLVMWKTNRSTVNGYFLAGRSMNWAAVGASLFVSNIGSEHFIGLAGSGAA |
| ME..D.AVV.LYFILV..IG.L.MWK.NRSTV.GYFLAGRSM.W...GASLFVSNIGSEHFIGLAGSGAA | |
| Retrocopy | MEAADIAVVALYFILVVVIGFLAMWKANRSTVSGYFLAGRSMTWIVIGASLFVSNIGSEHFIGLAGSGAA |
| Parental | SGLSVAAWELNALLLLQLLGWVFIPVYIQSGVCTMPEYLAKRYGGKRLQVYFAVLSLVLYIFTRLSVDLY |
| SG..V.AWE.NALLLLQLLGWVF.PVYI.SGV.TMPEYL.KRYGG.RL.VYFA.LS..LYIFT.LSVDLY | |
| Retrocopy | SGFAVGAWEFNALLLLQLLGWVFVPVYIHSGVYTMPEYLSKRYGGNRLKVYFAFLSVMLYIFTKLSVDLY |
| Parental | AGALFIQESFGWNLYLSIVFLILMTALLTITGGLVTVIYTDIVQAVLMISGALCLAGISFSKVGGFQGCG |
| AGALFIQES.GWNLYLSI..LI..TALLT.TGGLV.V.YTD..QAVLMI.GAL.L...S...VGG..G.. | |
| Retrocopy | AGALFIQESLGWNLYLSILLLISLTALLTVTGGLVAVMYTDALQAVLMIGGALTLTVMSLIQVGGLEGVR |
| Parental | TSTWRRTPNITAIMLSSPNLTYPESCLTHVQPKPDSLRMLRGPRDPDIPWPGFLLGQTPASIWYLYWCTD |
| T......PN..AI...S.N.TY...C..H..PK..SLR.LRGP.D.DIPWPGF.LGQTPASIWY..WC.D | |
| Retrocopy | TRYMKAVPNVPAI-IASGNFTYSPTCRIH--PKEHSLRILRGPLDEDIPWPGFILGQTPASIWY--WCAD |
| Parental | QVIVQRVLAAKNIAHAKGSTIMAGCLKILPMFVIVIPGMIARILFADELACISPEHCMHVCGSSAGCSNV |
| QVIVQRVLAAKNIAH.KGST.MAG.LK.LPMF.IVIPGMI.RI.FADE.ACI.PEHCM.VCGS.AGCSN. | |
| Retrocopy | QVIVQRVLAAKNIAHVKGSTLMAGFLKVLPMFLIVIPGMISRIMFADEIACIGPEHCMAVCGSQAGCSNI |
| Parental | AYPRLVMAVMPPGLRGLMVAVMIAALMSELDSIFNSSSTIFTLDIYKMMRKQASSLELMIVGRLFVVFMV |
| AYPRLVMAVMP.GLRGLM.AVM.AALMS.LDSIFNS.STIFTLDIY...R..AS..EL.I.GR.FVV.MV | |
| Retrocopy | AYPRLVMAVMPVGLRGLMMAVMLAALMSDLDSIFNSASTIFTLDIYQTVRRKASQRELLIIGRVFVVVMV |
| Parental | VVSIAWVPVIIEMQGGQMFYYIQEVTDYLTPPIATMFLISILWHRCNETGAFWGGIVGFALGAARLVLSY |
| ..SIAWVPVIIEMQGGQ...YIQEV..YLTPPIA..FL....W.RCNE.GAFWGG..GF.LG..RL.L.. | |
| Retrocopy | AISIAWVPVIIEMQGGQTYLYIQEVAGYLTPPIAALFLLGVFWKRCNEKGAFWGGMTGFILGTLRLILAF |
| Parental | IYREPRCDQPDERPFFIKDVHFMYVAAILFWVSGVVAVIVSLCTPPPKKEQIRNTTLWGFLRKKKLKQKE |
| IYR.PRCDQPD.RP.FI..VH.MY.AA.LFW.SG.VAV.VSLCT.PP..EQ...TT.WG.....K..... | |
| Retrocopy | IYRQPRCDQPDDRPAFIVKVHYMYFAAGLFWLSGLVAVVVSLCTSPPDDEQVHTTTIWGLRNIQKVPARS |
| Parental | EE |
| .E | |
| Retrocopy | RE |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Tetraodon nigroviridis was not studied using RNA-Seq expression data.
Tetraodon nigroviridis was not studied using ChIP-Seq data.
Tetraodon nigroviridis was not studied using EST data.
Tetraodon nigroviridis was not studied using FANTOM5 data.
retro_tnig_13 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_tnig_13 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oreochromis niloticus | ENSONIG00000015291 | 1 retrocopy | |
| Tetraodon nigroviridis | ENSTNIG00000014513 | 1 retrocopy |
retro_tnig_13 ,
|
| Xiphophorus maculatus | ENSXMAG00000002730 | 1 retrocopy |