RetrogeneDB ID: | retro_cfam_1686 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 4:20538055..20538427(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCAFG00000014614 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cfam_1686
GTGGCCTTCGTGGCTCTGGGAGCCTCCGCCCACGCTCTATGCCTGCAGAGCTGGCTTCTGGGAACTGGGCAGGCACAGAT
GAGAGACATCCACCGGCGAGCTTCATTGTTGTCCTTCTGGGAACTCATCCCCATGAGAGCAAAACCTCTGCAAAAGAAGA
AAAAGGTAGATCCTAAAAAAAGACCAAGCAGCAAAGGCCCATTTGAAAAAAAAAGGATCAGACAACTGGAGAAAGCCAGC
TAGGAACTAATTCCCACTGACAATTTTATTATACCTGTGAGGCTCTTAGAGAAAACAAGACGGCAGCCTCTCCTGGAGCT
TCCCTTTGAAGAGAGTGAGTGGAGAGCTCTGCTTCTGAGGAAGTGGTCCCTA
ORF - retro_cfam_1686 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.13 % |
| Parental protein coverage: | 59.71 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAVAALGASARALRSRSGLLGPWQTQMRETHQRAALLSFWELIPMRAEPLRKKKKVDPKKDQAVKDRLKK |
| .A..ALGASA.AL...S.LLG..Q.QMR..H.RA.LLSFWELIPMRA.PL.KKKKVDPKK....K..... | |
| Retrocopy | VAFVALGASAHALCLQSWLLGTGQAQMRDIHRRASLLSFWELIPMRAKPLQKKKKVDPKKRPSSKGPFXX |
| Parental | R-IRRLEKASQELIPIEDFITPVKLLDKTRQRPKVELPFEESERRALLLKKWSL |
| ..IR.LEKAS.ELIP...FI.PV.LL.KTR..P..ELPFEESE.RALLL.KWSL | |
| Retrocopy | XXIRQLEKAS*ELIPTDNFIIPVRLLEKTRRQPLLELPFEESEWRALLLRKWSL |
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 | 0 .00 RPM | 27 .64 RPM |
| SRP017611_brain | 0 .00 RPM | 17 .55 RPM |
| SRP017611_kidney | 0 .00 RPM | 75 .08 RPM |
| SRP017611_liver | 0 .00 RPM | 15 .81 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1686 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1686 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_1686 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000014614 | 2 retrocopies |
retro_cfam_1686 , retro_cfam_662,
|