RetrogeneDB ID: | retro_olat_57 | ||
Retrocopylocation | Organism: | Medaka (Oryzias latipes) | |
| Coordinates: | scaffold6628:2527..2964(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | ighv6-2 | ||
| Ensembl ID: | ENSORLG00000011804 | ||
| Aliases: | None | ||
| Description: | immunoglobulin heavy variable 6-2 [Source:ZFIN;Acc:ZDB-GENE-040514-24] |
Retrocopy-Parental alignment summary:
>retro_olat_57
AGCATTACAGAATCTGAAGCAGCAGTTAAAACACCTGGAGAGTCCCACAGACTCACCTGTACAACATCTGGATTTGACTT
TAGAGGCTCAGTGTGGAACTGGATCAGACAGACTCCTGGGAAAGGACTGGAGTGGATCTCTTTGGTGCACACATCCAGCA
GCCCAATCTATTACTCAGAGTCAGTGAAGAACAGATTTACCATCTTCAGAGATGACTCCAGCAGTAAAGTCTATCTGCAG
ATGAGCAATCTGAAGGCAGAAGACACAGCAATGTATTACTGTGCAGAAGAGACATACTGACTGAAGTGTTTGAAGAGTCA
CGCACAAACTATTTCCTCTGTTTACAACTGAAACAGGAGCTGGAGAGTGTCTGTGTTAGTTTAAAAACACAAACTACAAA
TGATTGTCAGGAATGGGAGGTGAAGGACTCAAAGAGT
AGCATTACAGAATCTGAAGCAGCAGTTAAAACACCTGGAGAGTCCCACAGACTCACCTGTACAACATCTGGATTTGACTT
TAGAGGCTCAGTGTGGAACTGGATCAGACAGACTCCTGGGAAAGGACTGGAGTGGATCTCTTTGGTGCACACATCCAGCA
GCCCAATCTATTACTCAGAGTCAGTGAAGAACAGATTTACCATCTTCAGAGATGACTCCAGCAGTAAAGTCTATCTGCAG
ATGAGCAATCTGAAGGCAGAAGACACAGCAATGTATTACTGTGCAGAAGAGACATACTGACTGAAGTGTTTGAAGAGTCA
CGCACAAACTATTTCCTCTGTTTACAACTGAAACAGGAGCTGGAGAGTGTCTGTGTTAGTTTAAAAACACAAACTACAAA
TGATTGTCAGGAATGGGAGGTGAAGGACTCAAAGAGT
ORF - retro_olat_57 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.34 % |
| Parental protein coverage: | 63.25 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | TLTESESVVKRPGESHRLTCSASGFTFSSYGMNWVRQAPGKGLEWIAYICTSSSPIYYSQSVQGRFSISR |
| ..TESE..VK.PGESHRLTC..SGF.F.....NW.RQ.PGKGLEWI....TSSSPIYYS.SV..RF.I.R | |
| Retrocopy | SITESEAAVKTPGESHRLTCTTSGFDFRGSVWNWIRQTPGKGLEWISLVHTSSSPIYYSESVKNRFTIFR |
| Parental | DDSSSKLYLQMNSLRMEDTAVYYCA-RRDTVRDILGTDVQKKDQMSCCQPSRSSNQSSSSSSSSSCVKCE |
| DDSSSK.YLQM..L..EDTA.YYCA.RRD.................C.Q..........S........C. | |
| Retrocopy | DDSSSKVYLQMSNLKAEDTAMYYCA<RRDILTEVF--EESRTNYFLCLQLKQELESVCVSLKTQTTNDCQ |
| Parental | QLTQPDSVS |
| .....DS.S | |
| Retrocopy | EWEVKDSKS |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Oryzias latipes was not studied using RNA-Seq expression data.
Oryzias latipes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_olat_57 retrocopy.
Oryzias latipes was not studied using FANTOM5 data.
retro_olat_57 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_olat_57 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Oryzias latipes | ENSORLG00000011804 | 1 retrocopy |
retro_olat_57 ,
|