RetrogeneDB ID: | retro_tbel_1482 | ||
Retrocopy location | Organism: | Treeshrew (Tupaia belangeri) | |
| Coordinates: | GeneScaffold_4859:508146..508730(-) | ||
| Located in intron of: | ENSTBEG00000007345 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | XRCC4 | ||
| Ensembl ID: | ENSTBEG00000002518 | ||
| Aliases: | None | ||
| Description: | X-ray repair complementing defective repair in Chinese hamster cells 4 [Source:HGNC Symbol;Acc:12831] |
Retrocopy-Parental alignment summary:
>retro_tbel_1482
GAGAAAAACCTGAAAGATATTTCATTCAGACTTGGTTCCTTCAACCTAGAGAAAGTTGAAATCCCAGCTGAGGTCATTAG
AGAATTTATTTTTTACTGCCTGGACACCATTACAGAAAACCAAGCCAAAAATGAGCACCTGCAGAAAGAAAACGAAAAGC
TTCTGAGAGATTGGAATGATATTGAAGGACGGTTTGAAAAATGTGTGAGTGCGAAGGAAGCTTTGGAGATGGATCTTTAT
GAACGGTTTATTTTGGTGTTGAATGAGAAGAAAACAAAGATTCGAACCTTACAGAAATCATTACATGAAGTTCAAGAACT
ACAAAAGAACACTGAATGTGAAAAGGAAACGGCAACCTGTTCTGAAATGACTGTTGACAGAGATGCAATCTATGATGAAA
GTACTGATGAGGAAAGTGAAAATCTGGTCTCTCTGTGTTGGCTGCAGCCACTGAAAGAAAAGAAGATTCTATTATTTCAA
GTCCTGATGTCATCGATATTGCACCAAGTAGAAAGAGGAGGCAGCAAATGCTAAAAAATCTTGGGACAGAATCTAAAATT
GCTCCTCAGGAACCTCAACTGCAA
ORF - retro_tbel_1482 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.37 % |
| Parental protein coverage: | 58.51 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | EKNLKDVSFRLGSFNLEKVASPAEVIRELICYCLDTITENQAKNEHLQKENERLLRDWNDIEGRFEKCVS |
| EKNLKD.SFRLGSFNLEKV..PAEVIRE.I.YCLDTITENQAKNEHLQKENE.LLRDWNDIEGRFEKCVS | |
| Retrocopy | EKNLKDISFRLGSFNLEKVEIPAEVIREFIFYCLDTITENQAKNEHLQKENEKLLRDWNDIEGRFEKCVS |
| Parental | AKEALEMDLYERFILVLNEKKTKIRTLQKSLNEVQELQKNTECERETATCSEMTVDRDAIYDESTDEESE |
| AKEALEMDLYERFILVLNEKKTKIRTLQKSL.EVQELQKNTECE.ETATCSEMTVDRDAIYDESTDEESE | |
| Retrocopy | AKEALEMDLYERFILVLNEKKTKIRTLQKSLHEVQELQKNTECEKETATCSEMTVDRDAIYDESTDEESE |
| Parental | NLSGLSVL-AAATERKEDSIISSPDVIDIAPSRKRRQRMLKNLGTEPKIAPQESQLQ |
| NL..L..L.AA.TERKEDSIISSPDVIDIAPSRKRRQ.MLKNLGTE.KIAPQE.QLQ | |
| Retrocopy | NLVSLCWL<AA-TERKEDSIISSPDVIDIAPSRKRRQQMLKNLGTESKIAPQEPQLQ |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Tupaia belangeri was not studied using RNA-Seq expression data.
Tupaia belangeri was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_tbel_1482 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_1482 was not experimentally validated.
Retrocopy orthology:
Tupaia belangeri 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 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Tupaia belangeri | ENSTBEG00000002518 | 7 retrocopies |
retro_tbel_1160, retro_tbel_1481, retro_tbel_1482 , retro_tbel_1586, retro_tbel_2351, retro_tbel_4287, retro_tbel_4542,
|