RetrogeneDB ID: | retro_cfam_444 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 11:11514850..11515113(-) | ||
| 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: | ENSCAFG00000014436 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cfam_444
AAACTGCCAATACCAATGGAAATCAATGCTGAAATAAAGCATCAGTTAAAAAGGGAAATTTGACAGTGTTGATGAAAATA
TGAAAGAATTTTCAAATTTCTTGAAGGAGTGAGCAGATCTCCAGAAATGTGGGAAAAAATTTCATACATGCCATAAAGGA
AGCAGCAAGATTTAAAAGCCAAGACTTAATAAGGCACCTGGAAAATACACTAGAAAAACTAGAATCTGACCTCTTTCTCA
ACAAAGATAATCACACCTCAAAT
ORF - retro_cfam_444 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.81 % |
| Parental protein coverage: | 59.86 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | KLPIPMVINMEIKEQLKKEIREFGGQHEKILKLLEGVQGPPELQRKF-VVYAMKQAVREQRQALIGHLQK |
| KLPIPM.IN.EIK.QLK.EI.......E.I.K.LEGV...PE...K.....A.K.A.R...Q.LI.HL.. | |
| Retrocopy | KLPIPMEINAEIKHQLKREI*QC**KYERIFKFLEGVSRSPEMWEKI<FIHAIKEAARFKSQDLIRHLEN |
| Parental | VLDKLELDHFLKKDIHTDN |
| .L.KLE.D.FL.KD.HT.N | |
| Retrocopy | TLEKLESDLFLNKDNHTSN |
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 .00 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_444 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_444 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_444 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 8 parental genes, and 9 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000014436 | 2 retrocopies |
retro_cfam_441, retro_cfam_444 ,
|
| Callithrix jacchus | ENSCJAG00000004135 | 1 retrocopy | |
| Dipodomys ordii | ENSDORG00000008443 | 1 retrocopy | |
| Homo sapiens | ENSG00000242284 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000021984 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000002303 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000020755 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000041730 | 1 retrocopy |