RetrogeneDB ID: | retro_cfam_493 | ||
Retrocopylocation | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 12:43846469..43846738(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | TRAC | ||
| Ensembl ID: | ENSCAFG00000025128 | ||
| Aliases: | None | ||
| Description: | T cell receptor alpha constant [Source:HGNC Symbol;Acc:12029] |
Retrocopy-Parental alignment summary:
>retro_cfam_493
GGCACCACAGTGTTTAGCTCCAACAAAACTATGCTGGTCACAAGGATTACAGATTCCAAAAGCAAGAGAGTCCTGACCTA
CAGCAGCAGTACTAAATTGGTTGCAAAAGCACTTTCAACCAGACCTTCTACTCCAGCTCAGAAATTTCCTGGAATGCTAA
GTTGGTAGGGAAAAACTTTGAAACGGATAGGAACCTAAACTTCCAAAACCTGTCAGTGACAAGGCCCCACATCCTCCTCC
TGAAAGTGGCTGGGTTTAACCTGCTCATG
GGCACCACAGTGTTTAGCTCCAACAAAACTATGCTGGTCACAAGGATTACAGATTCCAAAAGCAAGAGAGTCCTGACCTA
CAGCAGCAGTACTAAATTGGTTGCAAAAGCACTTTCAACCAGACCTTCTACTCCAGCTCAGAAATTTCCTGGAATGCTAA
GTTGGTAGGGAAAAACTTTGAAACGGATAGGAACCTAAACTTCCAAAACCTGTCAGTGACAAGGCCCCACATCCTCCTCC
TGAAAGTGGCTGGGTTTAACCTGCTCATG
ORF - retro_cfam_493 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 54.95 % |
| Parental protein coverage: | 57.69 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | GATVISLNSTVLDMKVMDSKSNGALTWNSETN-IECKENFQQPFYPSSNYSCDAKLIEKSFETDMDLNFY |
| G.TV.S.N.T.L.....DSKS...LT..S.T..I.CK..F.Q.FY.SS..S..AKL..K.FETD..LNF. | |
| Retrocopy | GTTVFSSNKTMLVTRITDSKSKRVLTYSSSTK<IGCKSTFNQTFYSSSEISWNAKLVGKNFETDRNLNFQ |
| Parental | NLLVIGLRILLLKVIGFNLFM |
| NL.V....ILLLKV.GFNL.M | |
| Retrocopy | NLSVTRPHILLLKVAGFNLLM |
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 | 1 .13 RPM |
| SRP017611_brain | 0 .00 RPM | 1 .43 RPM |
| SRP017611_kidney | 0 .00 RPM | 1 .06 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .09 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_493 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_493 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_493 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 | ENSCAFG00000025128 | 1 retrocopy |
retro_cfam_493 ,
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