RetrogeneDB ID: | retro_cfam_1627 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 38:9305070..9305356(+) | ||
| 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: | ENSCAFG00000032335 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cfam_1627
CCTCAAGAGCTCCATAGAAAGCTGCACCACCACCATGAAAGATGAGGACATCAGAGGGCACAAACAGGAGGTCATTAAGA
TCATTGAACAACAGATAGAGGTTGTTAACAATGGGGTCCTTGAGATCTACAGGAAGATTAGTGATTTAATCCTTACATTT
TTTTGAGCCCCAAGCCCAGTATAGCCTCCCAGAGATGGACTTCCATAAGTCTTACTTGAAGAATCTCTTACCTCAAAGCA
ACAAGCCCATTCAAACTGCCTCTTGAACCCACACATCTACCTCATT
ORF - retro_cfam_1627 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 55.56 % |
| Parental protein coverage: | 54.86 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | PQE-SSDSTHTTIEDEDTKARKQEVIKITEQLIEAVNNGDFEAYAKICDPGLT-SFEPEALGNLVEGMDF |
| PQE.S..S..TT..DED....KQEVIKI.EQ.IE.VNNG..E.Y.KI.D..LT..FEP.A...L.E.MDF | |
| Retrocopy | PQE>SIESCTTTMKDEDIRGHKQEVIKIIEQQIEVVNNGVLEIYRKISDLILT>FFEPQAQYSLPE-MDF |
| Parental | HRFYFENLLAKNSKPIHTT-ILNPHVHVI |
| H..Y..NLL....KPI.T...LNPH...I | |
| Retrocopy | HKSYLKNLLPQSNKPIQTA<LLNPHIYLI |
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 | 29 .90 RPM |
| SRP017611_brain | 0 .00 RPM | 88 .05 RPM |
| SRP017611_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP017611_liver | 0 .00 RPM | 0 .00 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_1627 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1627 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_1627 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000032335 | 1 retrocopy |
retro_cfam_1627 ,
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