RetrogeneDB ID: | retro_gacu_23 | ||
Retrocopy location | Organism: | Stickleback (Gasterosteus aculeatus) | |
| Coordinates: | groupXVIII:6891872..6892300(-) | ||
| Located in intron of: | ENSGACG00000007942 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KRBA2 | ||
| Ensembl ID: | ENSGACG00000003664 | ||
| Aliases: | None | ||
| Description: | KRAB-A domain containing 2 [Source:HGNC Symbol;Acc:26989] |
Retrocopy-Parental alignment summary:
>retro_gacu_23
CCCCTCATGATGCCGAAGAAAAAAGTTGATTCTGAAAACAGAGCCTTTCAAAACCGATGGGAGGCGGAGTATATGTTTAC
TGACATTGCTGGTGAGCCCGTTTGTCTCATCTGTGGCGCTAATGTGGCTGTATTTAAAGAGTTTAATCTAAGACGGCACT
ATGAGACAAAACATCAGGATAACCTGAAAGACCTGAATGCAGAGCAGAAGATACAGAAAGTACAAGAGTTAAAGAATAAG
CTGACACTCCAGCAGACGTTTTTTACTCGTGCAAAATCACAAAGTGAAGCTGCTGTGAAAGCAAGTTTTATCGTGGCGGA
GGAGATCGCCTAAGCAGCCGGCCATTCACAGAGGGAACATTTCTGAAGAGCTGCATGGTCAAGGTGTGCGACGTCATATG
TCCAGACAAAAAGCAGATGCTGGCAAAT
ORF - retro_gacu_23 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 57.93 % |
| Parental protein coverage: | 53.73 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | PSKMAKRKVDTENRGFQTRWESEYLFTEVAGKPVCLLCGESVAVRKEYNLRSRAHSWHADDKNKNMDMEQ |
| P..M.K.KVD.ENR.FQ.RWE.EY.FT..AG.PVCL.CG..VAV.KE.NLR......H.D...K....EQ | |
| Retrocopy | PLMMPKKKVDSENRAFQNRWEAEYMFTDIAGEPVCLICGANVAVFKEFNLRRHYETKHQDNL-KDLNAEQ |
| Parental | RLQKAEELKRGLKSRQALFKKAKSQGQAAVKASFILAEEIA-KSARPFTEGDFIKNCMIKVCDEVCPEKR |
| ..QK..ELK..L...Q..F..AKSQ..AAVKASFI.AEEIA..S.RPFTEG.F.K.CM.KVCD..CP.K. | |
| Retrocopy | KIQKVQELKNKLTLQQTFFTRAKSQSEAAVKASFIVAEEIA<LSSRPFTEGTFLKSCMVKVCDVICPDKK |
| Parental | QLFLN |
| Q...N | |
| Retrocopy | QMLAN |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Gasterosteus aculeatus was not studied using RNA-Seq expression data.
Gasterosteus aculeatus was not studied using ChIP-Seq data.
Gasterosteus aculeatus was not studied using EST data.
Gasterosteus aculeatus was not studied using FANTOM5 data.
retro_gacu_23 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_gacu_23 has 0 orthologous retrocopies within teleost group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gasterosteus aculeatus | ENSGACG00000003664 | 1 retrocopy |
retro_gacu_23 ,
|
| Pelodiscus sinensis | ENSPSIG00000011044 | 1 retrocopy |