RetrogeneDB ID: | retro_pcap_381 | ||
Retrocopy location | Organism: | Hyrax (Procavia capensis) | |
| Coordinates: | scaffold_61028:15298..16135(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ASB6 | ||
| Ensembl ID: | ENSPCAG00000013086 | ||
| Aliases: | None | ||
| Description: | ankyrin repeat and SOCS box containing 6 [Source:HGNC Symbol;Acc:17181] |
Retrocopy-Parental alignment summary:
>retro_pcap_381
AGCGATGTTCTCCTGCAGAACGGGGTTGGCCTCAACTTCAAAGACCTGGTCACCTACTATACCACCCTGCACAAGGCCTC
TGCATGAAACCAGCCCAGCCCAGTGGAGCTGCCGGCACCCCACTGGGCCGACACTAGTCAGAAGGACCAGATGGACCAGA
GCCGCCCCTCAGCCTGGCAGGAGGAGCCAGAGCACTGCCCTGCTGGCAGCACCTACTATACCTTGGAGCAGATGTCAGTA
TGACTGACAGGCATAGAGATACTGCTCTGCTCCATGCTTGAATCAGCAACGATGGGGTGCAGATCCACAACCCTGAGAAC
ACCCAGCTGTTGCCGGATGGAGGGATGAATGTCAAGGCTACCACCAAAGATCGGGATACTGTGTTCACCTGTCTCGTCTT
TCTGCTCAGTGAAACAGTGGGAGGGGACAGAGAGGAGGCCCACCTGATGAACCTCTTCTGCAGCTAAGTAACACAGCTGC
TGCTGGGGCAGGGGCAGACCCCAGCAAGTGCCCAGGCCACGAAGCCCTCACTCACATCTGCGTCAAGAGCTTTCCACTGC
ATTTCCCTCACCCACACTTCCTGCTGGAGTCCAGAGCCGCCTATAACTGCTCCCTCTACAAGGTGTCCTGCTGCTCTAGT
TTTCTCATCTCTGAGAGGCTCTCTTCGTACCTAGGCTGTACCCAAGATGAGAGTCACATGGACCTTCTGTGTAAAGCGAA
ACCATCCCAGATCTCACGATGACTAACTCCCAGAATCCCCAGCTGCCTCAAAATTTTGACACGTACCCTGGGGGCAGCCT
GGCAGGAAAGATCCAGGCCCTGCACTTCTTGAGGCAG
ORF - retro_pcap_381 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.19 % |
| Parental protein coverage: | 73.82 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | ADVLLRNGANLNFEXXXXXXXXXXXXXXXXQPNMVEL-LRHGADINRRDRIHESSPLDLASEEPER-LPC |
| .DVLL.NG..LNF.................QP..VEL...H.AD....D....S.P.....EEPE..LPC | |
| Retrocopy | SDVLLQNGVGLNFKDLVTYYTTLHKASA*NQPSPVELPAPHWADTSQKDQMDQSRP-SAWQEEPEH<LPC |
| Parental | LQRLLDLGADVNAADKHGKTALLHALASSDGVQIHNTENIRLLLEGGADVKATTKDGDTVFTCIIFLLSE |
| .Q.LL.LGADV...D.H..TALLHA..S.DGVQIHN.EN..LL..GG..VKATTKD.DTVFTC..FLLSE | |
| Retrocopy | WQHLLYLGADVSMTDRHRDTALLHA*ISNDGVQIHNPENTQLLPDGGMNVKATTKDRDTVFTCLVFLLSE |
| Parental | TVGGDKEEAELINRFCFQVTQLLLAH-GADPSECPAHESLTHICLKSFKLHFPLLRLLLESGAAYNCSLH |
| TVGGD.EEA.L.N.FC..VTQLLL...GADPS.CP.HE.LTHIC.KSF.LHFP....LLES.AAYNCSL. | |
| Retrocopy | TVGGDREEAHLMNLFCS*VTQLLLGQ<GADPSKCPGHEALTHICVKSFPLHFPHPHFLLESRAAYNCSLY |
| Parental | GASCWSGFHIIFERLCSHPGCAEDESHVDLLHKA-ETVLDLMVTNSQKLQLPENFDIHPVGSLAGKIQAL |
| ..SC.S.F..I.ERL.S..GC..DESH.DLL.KA.ET..DL..TNSQ..QLP.NFD..P.GSLAGKIQAL | |
| Retrocopy | KVSCCSSF-LISERLSSYLGCTQDESHMDLLCKA<ETIPDLTMTNSQNPQLPQNFDTYPGGSLAGKIQAL |
| Parental | HFSLRQ |
| HF.LRQ | |
| Retrocopy | HF-LRQ |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Procavia capensis was not studied using RNA-Seq expression data.
Procavia capensis was not studied using ChIP-Seq data.
Procavia capensis was not studied using EST data.
Procavia capensis was not studied using FANTOM5 data.
retro_pcap_381 was not experimentally validated.
Retrocopy orthology:
Procavia capensis 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 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macropus eugenii | ENSMEUG00000007753 | 1 retrocopy | |
| Procavia capensis | ENSPCAG00000013086 | 2 retrocopies |
retro_pcap_264, retro_pcap_381 ,
|