RetrogeneDB ID: | retro_cfam_1857 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 7:63982078..63982595(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZGLP1 | ||
| Ensembl ID: | ENSCAFG00000031603 | ||
| Aliases: | None | ||
| Description: | zinc finger, GATA-like protein 1 [Source:HGNC Symbol;Acc:37245] |
Retrocopy-Parental alignment summary:
>retro_cfam_1857
CTGGCGCCGCCATGTCTGGACCCTAAGCCCCCCGGGGGGCCTTCCCCTGCTCAGCAGGCACCAAGGACCCCAGGATGCCC
CAGAACCAATGGCAGGTCCTTCTGGCCTGCATGCCAGGACTTGGTCACTTCCCTGCGTTTCCTCCAGGAAACAGCAGAGG
GGCTGGTACAGCCCCCTGCCTGGGACACCCACACCCTGGGGCCCTGCTCAGAGCTGAAGGCCTTGGAGACTCTGGGACCC
TTGCCTCTGGCAAGGAATGCCAAGAACATGCTGACCCCAATCAGCCAGCCGAGCTGCAGCTTGGGGCCCCCCGGAGGCTC
CCCCAGCCCCTGCAGCCCTATCCCGGAGGAGGCCCTGGAAGCAGTCAAAGCCCCACTGGGGCGCTGAGAACGTGGACCCC
CAGTTCAAAGTTCCAGATAAAGCTGGATTCCAGCCTACAGATCATACCCAGCTATAGCTTGGCCTGCAGTAGCCGTGCTC
AGGCTCCCTCTACAGGCCCTGCTGGGGGCCCTGAGGT
ORF - retro_cfam_1857 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.99 % |
| Parental protein coverage: | 63.14 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | LAPPCLDPKSPRGASPAQQAPRTPGCPRTNGRSFWPARQDSVTALRFLQETAEGLVQTPAWDTHTLGPCW |
| LAPPCLDPK.P.G.SPAQQAPRTPGCPRTNGRSFWPA.QD.VT.LRFLQETAEGLVQ.PAWDTHTLGPC. | |
| Retrocopy | LAPPCLDPKPPGGPSPAQQAPRTPGCPRTNGRSFWPACQDLVTSLRFLQETAEGLVQPPAWDTHTLGPCS |
| Parental | ELKALETLGPSPLARDAKNMLTPVSQPSCSL-GSPEAPPAPAALPRRRPRKQSKPHQGAEKVDPRFEGVT |
| ELKALETLGP.PLAR.AKNMLTP.SQPSCSL.G.PEAPPAPAAL.RRRP.KQSKPH.GAE.VDP.F..V. | |
| Retrocopy | ELKALETLGPLPLARNAKNMLTPISQPSCSL>GPPEAPPAPAALSRRRPWKQSKPHWGAENVDPQFK-VP |
| Parental | LKFQIKPDSSLQIIPSYSLACGSRAQAPSTGPAG |
| .K....P....Q........C......P..GP.G | |
| Retrocopy | DKAGFQPTDHTQL*LGLQ*PCSGSLYRPCWGP*G |
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 | 0 .04 RPM |
| SRP017611_brain | 0 .00 RPM | 0 .24 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_1857 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1857 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_1857 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 | ENSCAFG00000031603 | 1 retrocopy |
retro_cfam_1857 ,
|