RetrogeneDB ID: | retro_cfam_469 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 11:56670778..56671336(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MARC2 | ||
| Ensembl ID: | ENSCAFG00000011332 | ||
| Aliases: | None | ||
| Description: | mitochondrial amidoxime reducing component 2 [Source:HGNC Symbol;Acc:26064] |
Retrocopy-Parental alignment summary:
>retro_cfam_469
AGGCTATTGGGCATGGACATTAAGGGCAGGGACTGTGGCGATGAGGCAGCGCAGTGATTCACCAGCTTCTTGAAAACAGA
AGCTTTCAGGCTGGTTCAGTTTGAGAAGCACATGAAAGGAAGATGGTTGAAGGAAATTTTCTCTCCTGTGGTACTGAATT
ACCAGTTGGCCTACCCAGACTGCAGCCCCATCATGGTCCTCCCTGAAGCCTCCTTGGTGGCTCTGAGTACCAGGCTGGAG
AAGAAAGTGAAAATGGACCAGTTCAGATCCAATATCATGGTGACAGGCTGTGATGCTTCCGAGGAGGACACCTGGGATGA
ACTCCTCATTGGCAACGTAGAAATGATAAAAGTTTTGTCTTGCCCCAGGTGCATCTTGACCACCACAGACCCAGATACTG
GAATCATAGATAGGAAGGAGCCCCTGGAAACCCTGAAGAGCTACCCCCTGTGTGCTCCTTTGGAGAAACAAATATACAAG
TCATCCCCACTTTTCAGGTTCTATTATTCAGTGGAGAAAATTGGCAAGATGCAAGCTGGTGACCCAGTGTATCAGATG
ORF - retro_cfam_469 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 86.56 % |
| Parental protein coverage: | 99.47 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | RLFGMDIKGRDCGDEAAQWFTSFLKTEAFRLVQFEKHMKGRPSKEIFSPVVPNYQVAYPDCSPIMILSEA |
| RL.GMDIKGRDCGDEAAQ.FTSFLKTEAFRLVQFEKHMKGR..KEIFSPVV.NYQ.AYPDCSPIM.L.EA | |
| Retrocopy | RLLGMDIKGRDCGDEAAQ*FTSFLKTEAFRLVQFEKHMKGRWLKEIFSPVVLNYQLAYPDCSPIMVLPEA |
| Parental | SLADLNTRLEKKVKMDQFRPNIVVTGCDAFEEDTWDELLIGNVEMKKVLSCPRCILTTVDPDTGIIDRKE |
| SL..L.TRLEKKVKMDQFR.NI.VTGCDA.EEDTWDELLIGNVEM.KVLSCPRCILTT.DPDTGIIDRKE | |
| Retrocopy | SLVALSTRLEKKVKMDQFRSNIMVTGCDASEEDTWDELLIGNVEMIKVLSCPRCILTTTDPDTGIIDRKE |
| Parental | PLETLKSYRLCDPSEKQIYKSSPLFGIYYSVEKIGSLQVGDPVYRM |
| PLETLKSY.LC.P.EKQIYKSSPLF..YYSVEKIG..Q.GDPVY.M | |
| Retrocopy | PLETLKSYPLCAPLEKQIYKSSPLFRFYYSVEKIGKMQAGDPVYQM |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP012049_cerebellum | 1 .81 RPM | 16 .04 RPM |
| SRP017611_brain | 1 .67 RPM | 17 .70 RPM |
| SRP017611_kidney | 55 .60 RPM | 536 .02 RPM |
| SRP017611_liver | 41 .48 RPM | 399 .91 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_469 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_469 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_469 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000011332 | 1 retrocopy |
retro_cfam_469 ,
|
| Oryctolagus cuniculus | ENSOCUG00000013162 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000037850 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000006676 | 1 retrocopy |