RetrogeneDB ID: | retro_cfam_1651 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 4:27609016..27609525(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | C1orf194 | ||
| Ensembl ID: | ENSCAFG00000019853 | ||
| Aliases: | None | ||
| Description: | chromosome 1 open reading frame 194 [Source:HGNC Symbol;Acc:32331] |
Retrocopy-Parental alignment summary:
>retro_cfam_1651
ATGCCTTTCACCCGAGACCCTTTCCAGCACCCTACGTTGGAAAACTATGATTCCTACCTGGAGAAACTCCGGGCTTCCAA
GAAACTGCCATATAAGAACCCAACTCACCTTGCTCAGCAACAGGAACCCTGGAGTCAGCTCAGCTCGACTCCCACAATCA
CCTCCATGAGGCAAGATATTTATTTTTTTGATCCTGAGATACCAAAGGATGACCTGGATTTCCGCTTAGCAGCCTTGTAC
AACCACCACACAGGGACATTCAAGAACAAAAGTGAGATACTTTTACACCAGGAGACCACTCAGGATATCCACCGTATCAT
CAAGACCTAATTCCCTGGAGAACTTTTACCCCCTCCTCCGCCACCTTCCATTACTTCCCGAGCTAACATCAGACACTGGA
TCAACCCTAAGGAGTCTATCCACAGCATCCAGGGATCATAGTGTCCCCTCACACTGCAGCCACCAATGGAGGCTACTCCC
GAAAGAATGATGGTGGCTTCTTCTGTACT
ORF - retro_cfam_1651 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.28 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MPFPRDPLQRPTLENDDSYLGKLRASKKLPYKNPTHLAQQQEPWSRLSSTPTITSTRRDIYFLDPEIPKD |
| MPF.RDP.Q.PTLEN.DSYL.KLRASKKLPYKNPTHLAQQQEPWS.LSSTPTITS.R.DIYF.DPEIPKD | |
| Retrocopy | MPFTRDPFQHPTLENYDSYLEKLRASKKLPYKNPTHLAQQQEPWSQLSSTPTITSMRQDIYFFDPEIPKD |
| Parental | DLDFRLAALYNHHTGTFKNKSEILLHQETTQDIHGIIKTQFPGELLPPPPPPSVTSRANIRHWINPKKES |
| DLDFRLAALYNHHTGTFKNKSEILLHQETTQDIH.IIKT.FPGELLPPPPPPS.TSRANIRHWINP.KES | |
| Retrocopy | DLDFRLAALYNHHTGTFKNKSEILLHQETTQDIHRIIKT*FPGELLPPPPPPSITSRANIRHWINP-KES |
| Parental | IHSIQGS-IVSPHTAATNGGYSRKNDGGFFST |
| IHSIQGS.IVSPHTAATNGGYSRKNDGGFF.T | |
| Retrocopy | IHSIQGS<IVSPHTAATNGGYSRKNDGGFFCT |
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 | 4 .41 RPM |
| SRP017611_brain | 0 .00 RPM | 14 .53 RPM |
| SRP017611_kidney | 0 .00 RPM | 1 .12 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_1651 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_1651 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_1651 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000019853 | 3 retrocopies |
retro_cfam_1217, retro_cfam_1651 , retro_cfam_1827,
|
| Monodelphis domestica | ENSMODG00000002197 | 1 retrocopy | |
| Mustela putorius furo | ENSMPUG00000002787 | 3 retrocopies |