RetrogeneDB ID: | retro_gmor_17 | ||
Retrocopy location | Organism: | Cod (Gadus morhua) | |
| Coordinates: | GeneScaffold_3776:501613..502705(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSGMOG00000020044 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | POU3F3 (1 of 2) | ||
| Ensembl ID: | ENSGMOG00000015654 | ||
| Aliases: | None | ||
| Description: | POU class 3 homeobox 3 [Source:HGNC Symbol;Acc:9216] |
Retrocopy-Parental alignment summary:
>retro_gmor_17
ATGGCCACAGCTGCCTCCAGCCCCTACACCCTGCTCAGTTCCAGCCCCATGATCCACCCCGACAGCCAGGCCATGCAGCC
GGCCAGTCCCTACAGGAGCCACCCCAAGCTCATGCAGAGCGACTACCTGCAGAGCGTCCAGAGCAACGGCCATTCCCTGG
GGCACCAGTGGGCGAGCAGCCTGTCGGAGGGCAGCCCCTGGTCGGCCTCCATGGAGCAACAGGACATCAAACCCGGCCGG
GAGGACCTTCAGCTCGGCATCATCCATCACCGCTCGCAGCACGTAGCGCACCACTCGCCCCATCACAACAACCATGCCAA
CCATCCGGGTGTCTGGGGCACTCAGGTGTCCCACAACTCCTCCATCAACAGTGGGCAGCAGCTCAACCTCTACTCCCAGA
CGGGCTTCACGGTCAACGGCATGCTGGAGCACGGCGGCCTCACACCTCCGTCTAATCAGCAGGGCCAGGGCATGCACCCC
GGCCTCAGGGACACGCTCAGCCCCGATCACAGCGACCTCGGCGGGCACCACTGCCACGACCACTCCGACGAAGAGACGCC
CACTTCGGACGAACTGGAGCACTTTGCCAAACAGTTCAAACAGCGGAGAATTAAGCTGGGCTTTACGCAGGCCGACGTGG
GTCTGGCACTGGGCACTCTGTACGGCAACGTTTTTTCCCAGACCACCATCTGCAGGTTCGAGGCTCTGCAGCTGAGCTTT
AAAAACATGTGCAAGTTAAAGCCGCTGCTGAACAAGTGGCTGGAGGAGGCGGACTCGTCGACGGGCAGCCCCAGCAGTAT
AGACAAGATAGCAGCTCAGGGCAGGAAGAGGAAGAAGAGGACGTCCATCGAAGTCAGCGTGAAGGGGGTTTTGGAGACGC
ACTTTCTGAAATGTCCCAAGCCCTCCGCGCAGGAGATTACCTCGCTCGCGGACTCGCTGCAGCTGGAGAAGGAGGTGGTG
CGCGTGTGGTTCTGCAACCGACGGCAGAAGGAGAAGCGCATGACGCCACCAGGAGAGCCTCCGATGCACGAGGGACCGTA
TTCTCACGGCGGCGGGAGCGCGGGAGACGCTTCGTCGTGCCATGATCTCTGA
ORF - retro_gmor_17 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.5 % |
| Parental protein coverage: | 51.95 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VHAGLVRGDTPDLDHGGSNNSHEVHSDEDTPTSDDLEQFAKQFKQRRIKLGFTQADVGLALGTLYGNVFS |
| .H.GL.....PD....G....H..HSDE.TPTSD.LE.FAKQFKQRRIKLGFTQADVGLALGTLYGNVFS | |
| Retrocopy | MHPGLRDTLSPDHSDLGGHHCHD-HSDEETPTSDELEHFAKQFKQRRIKLGFTQADVGLALGTLYGNVFS |
| Parental | QTTICRFEALQLSFKNMCKLKPLLNKWLEEADSTTGSPTSIDKIAAQGRKRKKRTSIEVSVKGALESHFL |
| QTTICRFEALQLSFKNMCKLKPLLNKWLEEADS.TGSP.SIDKIAAQGRKRKKRTSIEVSVKG.LE.HFL | |
| Retrocopy | QTTICRFEALQLSFKNMCKLKPLLNKWLEEADSSTGSPSSIDKIAAQGRKRKKRTSIEVSVKGVLETHFL |
| Parental | KCPKPSAQEITSLADNLQLEKEVVRVWFCNRRQKEKRMTPPGVPQTPEDVYSQVGNASAD |
| KCPKPSAQEITSLAD.LQLEKEVVRVWFCNRRQKEKRMTPPG.P...E..YS..G....D | |
| Retrocopy | KCPKPSAQEITSLADSLQLEKEVVRVWFCNRRQKEKRMTPPGEPPMHEGPYSHGGGSAGD |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Gadus morhua was not studied using RNA-Seq expression data.
Gadus morhua was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_gmor_17 retrocopy.
Gadus morhua was not studied using FANTOM5 data.
retro_gmor_17 was not experimentally validated.
Retrocopy orthology:
Gadus morhua 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 | |
|---|---|---|---|
| Gadus morhua | ENSGMOG00000015654 | 1 retrocopy |
retro_gmor_17 ,
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