RetrogeneDB ID: | retro_ogar_125 | ||
Retrocopy location | Organism: | Bushbaby (Otolemur garnettii) | |
| Coordinates: | GL873685.1:840849..841809(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSOGAG00000029165 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SOX3 | ||
| Ensembl ID: | ENSOGAG00000025781 | ||
| Aliases: | None | ||
| Description: | SRY (sex determining region Y)-box 3 [Source:HGNC Symbol;Acc:11199] |
Retrocopy-Parental alignment summary:
>retro_ogar_125
ATGTACAACATGATGGAGACGGAGCTGAAGCCGCCGGGCCCGCAGCAAACTTCGGGGGGCGGCGGCGGCGGCGGCAACTC
CACCGCGGCGGCGGCGGGCGGCAACCAGAAGAACAGCCCGGACCGCGTCAAGCGGCCCATGAATGCCTTCATGGTGTGGT
CCCGCGGGCAGCGGCGCAAGATGGCCCAGGAAAACCCCAAGATGCATAACTCGGAGATCAGCAAGCGCCTGGGCGCCGAG
TGGAAACTTTTGTCGGAGACGGAGAAACGGCCTTTCATCGACGAGGCCAAGCGGCTGCGAGCCCTGCACATGAAGGAGCA
CCCGGATTATAAATACCGGCCCCGGCGGAAAACCAAGACGCTCATGAAGAAGGATAAGTACACGCTGCCCGGCGGGCTGC
TGGCCCCCGGCGGCAACAGCATGGCGAGCGGGGTCGGGGTGGGCGCCGGCCTGGGCGCGGGCGTGAATCAGCGCATGGAC
AGTTACGCGCACATGAACGGCTGGAGCAATGGCAGCTACAGCATGATGCAGGACCAGCTGGGCTACCCGCAGCACCCGGG
CCTCAATGCTCACGGCGCCGCGCAGATGCAGCCCATGCACCGCTACGACGTGAGCGCCCTGCAGTACAACTCCATGACCA
GCTCGCAGACCTACATGAACGGCTCGCCCACCTACAGCATGTCCTACTCACAGCAGGGCACCCCTGGCATGGCTCTGGGC
TCCATGGGTTCGGTGGTCAAGTCCGAGGCCAGCTCCAGCCCCCCTGTGGTTACCTCTTCCTCCCACTCCAGGGCGCCCTG
CCAGGCCGGGGACCTCCGGGACATGATCAGCATGTACCTCCCCGGCGCCGAGGTGCCGGAACCCGCCGCCCCCAGCAGAC
TTCACATGTCTCAGCACTACCAGAGCGGCCCGGTGCCCGGCACGGCCATTAACGGCACACTGCCCCTCTCGCACATGTGA
ORF - retro_ogar_125 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 56.8 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MYSLLETELKNPVGTPTPAAATGGPSAPGGAGSSGSASGGGGGSDQDRVKRPMNAFMVWSRGQRRKMALE |
| MY...ETELK.....P.P....GG....GG..S...A.GG......DRVKRPMNAFMVWSRGQRRKMA.E | |
| Retrocopy | MYNMMETELK----PPGPQQTSGGGG--GGGNSTAAAAGGNQKNSPDRVKRPMNAFMVWSRGQRRKMAQE |
| Parental | NPKMHNSEISKRLGADWKLLTDAEKRPFIDEAKRLRAVHMKEYPDYKYRPRRKTKTLLKKDKYSLPGGLL |
| NPKMHNSEISKRLGA.WKLL...EKRPFIDEAKRLRA.HMKE.PDYKYRPRRKTKTL.KKDKY.LPGGLL | |
| Retrocopy | NPKMHNSEISKRLGAEWKLLSETEKRPFIDEAKRLRALHMKEHPDYKYRPRRKTKTLMKKDKYTLPGGLL |
| Parental | PPGAAAAAAAAAAAAAASSPVGVGQRLDTYTHVNGWANGAYSLVQEQLGYAQPPSMSSPPPPPALPQMHR |
| .PG....A......A......GV.QR.D.Y.H.NGW.NG.YS..Q.QLGY.Q.P...........P.MHR | |
| Retrocopy | APGGNSMASGVGVGAGLGA--GVNQRMDSYAHMNGWSNGSYSMMQDQLGYPQHPGLNAHGAAQMQP-MHR |
| Parental | YDMAGLQYSPMMPPGAQSYMNAAAAAAAASGYGGMAPSAAMSLGPMGSVVKSEPSSPPPAI--ASHSQRA |
| YD...LQY..M.....Q.YMN............G......M.LG.MGSVVKSE.SS.PP.....SHS... | |
| Retrocopy | YDVSALQYNSM--TSSQTYMNGSPTYSMSYSQQG---TPGMALGSMGSVVKSEASSSPPVVTSSSHSRAP |
| Parental | C-LGDLRDMISMYLPPGGDAADAASPLPGGRLHGVHQHYQGA---GTAVNGTVPLTHI |
| C..GDLRDMISMYL.PG......A.P....RLH...QHYQ.....GTA.NGT.PL.H. | |
| Retrocopy | CQAGDLRDMISMYL-PGAEVPEPAAP---SRLH-MSQHYQSGPVPGTAINGTLPLSHM |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_125 was not experimentally validated.
Retrocopy orthology:
Otolemur garnettii 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Otolemur garnettii | ENSOGAG00000025781 | 1 retrocopy |
retro_ogar_125 ,
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