RetrogeneDB ID: | retro_onil_23 | ||
Retrocopy location | Organism: | Tilapia (Oreochromis niloticus) | |
| Coordinates: | GL831311.1:558590..560726(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSONIG00000020671 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SLC5A3 (2 of 2) | ||
| Ensembl ID: | ENSONIG00000015291 | ||
| Aliases: | None | ||
| Description: | solute carrier family 5 (sodium/myo-inositol cotransporter), member 3 [Source:HGNC Symbol;Acc:11038] |
Retrocopy-Parental alignment summary:
>retro_onil_23
ATGGCTGGTGGAATGGAAGCAGCAGACATAGCTGTGGTGGCACTGTATTTCGTCCTGGTGCTAGCCATCGGGTTTCTTGC
CATGTGGAAAGCCAATCGCAGCACTGTGAGTGGCTACTTCCTGGCTGGACGCTCCATGACATGGATTGTGATAGGTGCCT
CACTGTTTGTTAGCAACATTGGTAGTGAACATTTCATTGGCCTGGCTGGGTCAGGAGCAGCAAGTGGCTATGCTGTAGGA
GCGTGGGAATTTAATGCACTTCTACTTCTGCAGCTGCTTGGCTGGGTGTTTATCCCTGTGTATATCCACTCGGGAGTCTA
CACCATGCCAGAGTACCTATCAAAACGCTATGGTGGCAAACGACTGAAGGTTTACTTTGCTTTCTTGTCTGTGCTGCTTT
ACATTTTTACCAAACTGTCTGTGGACTTGTATGCTGGAGCTCTCTTTATTCAGGAGTCCCTTGGATGGAATCTCTATTTA
TCTATTGTTCTGCTTATCAGTATGACTGCTCTGCTCACTGTCACTGGTGGATTGGTGGCAGTGCTCTACACCGACGCCCT
TCAGGCAGTGTTGATGATCAGTGGAGCCCTTACCTTAACCATCATGAGCCTGATCAAAGTCGGTGGGCTAGAGGGTGTCA
GAACTAAGTACATGCAGGCAGTTCCTAATGTTACCGCTATACTAGCCACTGGAAACTACACATACTCTCCTTCATGTCGC
ATTGACCCTAAACCAAACTCGCTGCGCATCCTTCGAGGTCCCCTGGATGAAGACATTCCTTGGCCAGGTTTTATTTTTGG
ACAGACGCCTGCATCTATTTGGTACTGGTGTGCAGACCAGGTCATTGTCCAGAGAGTACTGGCAGCAAAAAACATTGCTC
ATGCAAAGGGCTCAACACTCATGGCTGGATTTCTCAAAATCCTGCCCATGTTTCTAATAGTCATTCCAGGAATGATATCC
CGCATCTTGTTTGCAGATGAGATTGCCTGCATCGGGCCGGAGCACTGCATGGCTGTTTGTGGTTCCCAAGCTGGCTGCTC
AAACATTGCCTACCCGCGTCTGGTCATGGCGGTGATGCCCGTGGGACTCAGGGGTCTTATGATGGCAGTCATGATAGCTG
CCCTGATGAGTGACCTTGACTCGATCTTCAACAGCGCAAGCACCATCTTCACCTTGGACATCTACCAGACCTTTCGGACG
AAGGCATGCCAACGCGAACTGTTGATTGTGGGCCGCATGTTTGTTGTGGTCATGGTGGTCATCAGTATTGCCTGGGTGCC
TGTCATTATTGAGATGCAAGGTGGACAGACATACCTCTACATCCAGGAAGTTGCTGGCTACCTCACTCCACCAATTGCTG
CCCTTTTCCTTCTAGGTGTATTCTGGAAGCGATGTAATGAGAGAGGTGCATTCTGCGGAGGCATGACGGGTTTTACCCTA
GGTACCATACGACTGATCCTGGCATTTATCTACCGCCAGCCTCGCTGTGACCAGCCAGATAATAGGCCTGCCTTCGTTGT
TCGAATTCACTACATGTATTTTGCTGCTGGGCTGTTCTGGATTTCAGGGTTGGTGGCAATTGTGGTCAGTCTCTGTACTT
CTCCACCAGATAAGGAGCAGGTTCGCACCACCACCCTCTGGGGGCTCTACAGCATTGAAATGACTCCCCCTAAGAACAGA
GAGGAAACGTACCGGCTGACTGAGAAGAACCACTGTAATGGTGACACAAGCCTGCGTAAAGAGCTGCCCCCAGACGTTAA
AAAAGAGAGGTGCGTGGACGGGATGGATATCAAACTTCTGGTCCCTTCCACAGACCATGACCCAGCAACGCCAAGTACAG
AAACTTCCCCTGCCACCACTCCTGGAGCCCAGATTGGTAACAGAAATATGGAGACTATCAGAGCAGAGGAAGGCTGCCGC
AGTGGTGCAGAGACGAGCAGGTGCATGCGTTTGCTGGACTGGGTTTGCGGCTATAAGGGAGAATCGCAGAGCGCTCAGCA
AACAGGGGCGAAGGAGGACGCGAGAGCCATCGCAGAGATGCTGTACGAGCCACCTCGAGTCAAACTTCTCCTCAACCTGG
GCTTGGTCTCAGTCTGCTCTGTGGGCATCTTCATGTTTGTTTATTTTTCACTGTAG
ORF - retro_onil_23 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.1 % |
| Parental protein coverage: | 74.86 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MEAADMIVVAIYFILVLGIGFLAMWKANRSTVSGYFLAGRSMNWAAVGASLFVSNIGSEHFIGLAGSGAA |
| MEAAD..VVA.YF.LVL.IGFLAMWKANRSTVSGYFLAGRSM.W...GASLFVSNIGSEHFIGLAGSGAA | |
| Retrocopy | MEAADIAVVALYFVLVLAIGFLAMWKANRSTVSGYFLAGRSMTWIVIGASLFVSNIGSEHFIGLAGSGAA |
| Parental | SGLSVAAWELNAVLLLQFLGWMFIPVYIQCGVYTMPEYLSKRYGGNRLKVYFAALSLVLYIFTKLSVDLY |
| SG..V.AWE.NA.LLLQ.LGW.FIPVYI..GVYTMPEYLSKRYGG.RLKVYFA.LS..LYIFTKLSVDLY | |
| Retrocopy | SGYAVGAWEFNALLLLQLLGWVFIPVYIHSGVYTMPEYLSKRYGGKRLKVYFAFLSVLLYIFTKLSVDLY |
| Parental | SGALFIKESLGWNLYLSILLLIAMTALLTISGGLVAVIYTDTVQAFLMIAGALCLTGISLVKVGGFEGVR |
| .GALFI.ESLGWNLYLSI.LLI.MTALLT..GGLVAV.YTD..QA.LMI.GAL.LT..SL.KVGG.EGVR | |
| Retrocopy | AGALFIQESLGWNLYLSIVLLISMTALLTVTGGLVAVLYTDALQAVLMISGALTLTIMSLIKVGGLEGVR |
| Parental | LGYMEATPNISAILLSSPNLTYSESCYNHATPKPDSLKILRAAQDPDLPWLGFLLGQTPASIWYWCADQV |
| ..YM.A.PN..AIL....N.TYS.SC.....PKP.SL.ILR...D.D.PW.GF..GQTPASIWYWCADQV | |
| Retrocopy | TKYMQAVPNVTAILATG-NYTYSPSC--RIDPKPNSLRILRGPLDEDIPWPGFIFGQTPASIWYWCADQV |
| Parental | IVQRVLAAKNIAHAKGSTIMAGFLKILPMFIIVIPGMISRILFADDLACISPKHCVEVCGSAAGCSNVAY |
| IVQRVLAAKNIAHAKGST.MAGFLKILPMF.IVIPGMISRILFAD..ACI.P.HC..VCGS.AGCSN.AY | |
| Retrocopy | IVQRVLAAKNIAHAKGSTLMAGFLKILPMFLIVIPGMISRILFADEIACIGPEHCMAVCGSQAGCSNIAY |
| Parental | PRLVMSVMPVGLRGLMMAVMIAALMSDLDSIFNSASTIFTLDIYKMLRKRASSRELMIVGRLFVVFMVII |
| PRLVM.VMPVGLRGLMMAVMIAALMSDLDSIFNSASTIFTLDIY...R..A..REL.IVGR.FVV.MV.I | |
| Retrocopy | PRLVMAVMPVGLRGLMMAVMIAALMSDLDSIFNSASTIFTLDIYQTFRTKACQRELLIVGRMFVVVMVVI |
| Parental | SIAWVPVIIEMQGGQIFYYIQEVSDYLTPPIAALFLLGILWRRCNETGAFWGGMVGFFLGALRLALAFVY |
| SIAWVPVIIEMQGGQ...YIQEV..YLTPPIAALFLLG..W.RCNE.GAF.GGM.GF.LG..RL.LAF.Y | |
| Retrocopy | SIAWVPVIIEMQGGQTYLYIQEVAGYLTPPIAALFLLGVFWKRCNERGAFCGGMTGFTLGTIRLILAFIY |
| Parental | REPHCDQPDERPSFIKDIHYMYVAAILFWISSLVAVVVSLCTPPPEEGQIKTTTLWGL |
| R.P.CDQPD.RP.F...IHYMY.AA.LFWIS.LVA.VVSLCT.PP...Q..TTTLWGL | |
| Retrocopy | RQPRCDQPDNRPAFVVRIHYMYFAAGLFWISGLVAIVVSLCTSPPDKEQVRTTTLWGL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Oreochromis niloticus was not studied using RNA-Seq expression data.
Oreochromis niloticus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_onil_23 retrocopy.
Oreochromis niloticus was not studied using FANTOM5 data.
retro_onil_23 was not experimentally validated.
Retrocopy orthology:
Oreochromis niloticus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oreochromis niloticus | ENSONIG00000015291 | 1 retrocopy |
retro_onil_23 ,
|
| Tetraodon nigroviridis | ENSTNIG00000014513 | 1 retrocopy | |
| Xiphophorus maculatus | ENSXMAG00000002730 | 1 retrocopy |