RetrogeneDB ID: | retro_itri_386 | ||
Retrocopy location | Organism: | Squirrel (Ictidomys tridecemlineatus) | |
| Coordinates: | JH393288.1:18749110..18749635(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PARP11 | ||
| Ensembl ID: | ENSSTOG00000024474 | ||
| Aliases: | None | ||
| Description: | poly (ADP-ribose) polymerase family, member 11 [Source:HGNC Symbol;Acc:1186] |
Retrocopy-Parental alignment summary:
>retro_itri_386
ATGTTTCACAAAGCAGACAAAGTCTTACCCAACATGACAAATAGTGAAATGCTTGCCATGGGCACATCAGAAACCCAATA
GGACTGGTTTTACCTGGAAGAATGTGGGAAGTAGCATATGTTTCGGCCAGATACCAACATTCCATGTTCAGTTGGTAGTA
AAGACATCAAAAAGAGCTTCAGAACAAATCCTTGTGGCTCCATTTTTTTTACTATTTCCAAAGTCAGCTACAAGATAGAC
TTTGCTGAAAGGAAGTAAATGAAACTCACCATTGGAAAACAGTGCTTAATAACAAGGGCTCCTTTTTCTATCAGTACTTG
CAGTTATATCTGTGAAAATAAGGCTATCCCTATGCCACCCGACTGGCAGAATGTGAATACTAAAGCACCAAATCAACTTA
TTTCTCTGCACACTCAAACACATGAATATAACGAAGTTGTCAGTCTCTTTGAGAAAACAATGAATTGTAAATGAATTAGA
ATTCAGAGAATCCAAAATTTAGACCTATGGGAGTTCTTTTGCAGG
ORF - retro_itri_386 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 73.3 % |
| Parental protein coverage: | 53.17 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MFHKAEEFLSKTTDSEMDDMDTSDTQWGWFYLAECGKWHMFQPDTNIQCSVSSEDIEKSFRTNPCGSISF |
| MFHKA...L...T.SEM..M.TS.TQ..WFYL.ECGK.HMF.PDTNI.CSV.S.DI.KSFRTNPCGS... | |
| Retrocopy | MFHKADKVLPNMTNSEMLAMGTSETQ*DWFYLEECGK*HMFRPDTNIPCSVGSKDIKKSFRTNPCGSXXX |
| Parental | TTSKFSYKIDFAEMKQMNLTTGKQRLIKRAPFSISAFSYICENEAIPMPPHWENVNTEVPYQLISLHNQT |
| T.SK.SYKIDFAE.K.M.LT.GKQ.LI.RAPFSIS..SYICEN.AIPMPP.W.NVNT..P.QLISLH.QT | |
| Retrocopy | TISKVSYKIDFAERK*MKLTIGKQCLITRAPFSISTCSYICENKAIPMPPDWQNVNTKAPNQLISLHTQT |
| Parental | HEYNEVASLFGKTMDRNRIKRIQRIQNLDLWEFFCR |
| HEYNEV.SLF.KTM....I.RIQRIQNLDLWEFFCR | |
| Retrocopy | HEYNEVVSLFEKTMNCK*I-RIQRIQNLDLWEFFCR |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Ictidomys tridecemlineatus was not studied using RNA-Seq expression data.
Ictidomys tridecemlineatus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_itri_386 retrocopy.
Ictidomys tridecemlineatus was not studied using FANTOM5 data.
retro_itri_386 was not experimentally validated.
Retrocopy orthology:
Ictidomys tridecemlineatus 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 | |
|---|---|---|---|
| Ictidomys tridecemlineatus | ENSSTOG00000024474 | 1 retrocopy |
retro_itri_386 ,
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