RetrogeneDB ID: | retro_cfam_687 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 15:41914985..41915305(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PDCD10 | ||
| Ensembl ID: | ENSCAFG00000014569 | ||
| Aliases: | None | ||
| Description: | programmed cell death 10 [Source:HGNC Symbol;Acc:8761] |
Retrocopy-Parental alignment summary:
>retro_cfam_687
GAAGAAAATGCAGGTTTCATGCAAGACATCACTATGAAAATTTTAAAGGAAAAAAATGTAGACATGAATTCACCGAATCC
CTTCCTCAAATGACAGCTGATGGCAGAGGAGAGTATATGACTGAACCCTCAACACCAGGATTCCAGGTCGGAATGAAAAG
GCGTGATGAGCACCTAAATGGATTCTTGGTAAGATCTCCTATGAGATCAGTGACAGAACAAGGTTTCTACAGATGATCAG
GGATGTAACTATGCACAATGAAAGAATTTCTTGATATACTGAATAATGTTTTCAAGAAGTATCAACGCCAGAACTGCAGG
ORF - retro_cfam_687 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 57.27 % |
| Parental protein coverage: | 58.56 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | KENPGLTQDIIMKILEKKSVEVN-FTESLLRMAADDVEEYMIERPEPEFQ-DLNEKAR-ALKQILSKIPD |
| .EN.G..QDI.MKIL..K.V..N.FTESL..M.AD...EYM.E...P.FQ...NEKA..A.K.IL.KI.. | |
| Retrocopy | EENAGFMQDITMKILKEKNVDMN<FTESLPQMTADGRGEYMTEPSTPGFQ<GRNEKA**APKWILGKISY |
| Parental | EINDRVRFLQTIKDIAS-AIKELLDTVNNVFKKYQYQNRR |
| EI.DR.RFLQ.I.D......KE.LD..NNVFKKYQ.QN.R | |
| Retrocopy | EISDRTRFLQMIRDVTM>TMKEFLDILNNVFKKYQRQNCR |
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 | 12 .47 RPM |
| SRP017611_brain | 0 .00 RPM | 10 .00 RPM |
| SRP017611_kidney | 0 .00 RPM | 42 .59 RPM |
| SRP017611_liver | 0 .00 RPM | 3 .77 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_687 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_687 was not experimentally validated.