RetrogeneDB ID: | retro_cfam_428 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | 11:51700127..51700394(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GLIPR2 | ||
| Ensembl ID: | ENSCAFG00000030686 | ||
| Aliases: | None | ||
| Description: | GLI pathogenesis-related 2 [Source:HGNC Symbol;Acc:18007] |
Retrocopy-Parental alignment summary:
>retro_cfam_428
GAGAACTTGGCATGGGCTTCCTATGATCAGACAGAAAAGGAGATGGCTGATAGATGGTACAGTGAAATCAAGCACTACAA
CTTTCACCAGCCTGACTTCATCTCCAGGACTGGGTACTTCACAGATGATATCAAAGAATACAAAGAAGATGGGAGTAGGG
AAGGCACTTGCAAGTGAGGGGTCTTCCTTCATGGTGGCCTGATACTTCCTAGCAGGGAATGTTGTCAACTAGGCCTCTTT
GAAGAAAATATCTTGCCTCCAAAGAAG
ORF - retro_cfam_428 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.74 % |
| Parental protein coverage: | 58.82 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | ENLAWASYDQTGKEVADRWYSEIKNYNFQQPGFTSGTGHFTAMVWKNTKKMG-VGKASASDGSSFVVARY |
| ENLAWASYDQT.KE.ADRWYSEIK.YNF.QP.F.S.TG.FT....K..K..G.VGKA.AS.GSSF.VA.Y | |
| Retrocopy | ENLAWASYDQTEKEMADRWYSEIKHYNFHQPDFISRTGYFTDDI-KEYKEDG>VGKALASEGSSFMVA*Y |
| Parental | FPAGNVVN-QGFFEENVLPPKK |
| F.AGNVVN..G.FEEN.LPPKK | |
| Retrocopy | FLAGNVVN<LGLFEENILPPKK |
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 | 6 .93 RPM |
| SRP017611_brain | 0 .08 RPM | 7 .15 RPM |
| SRP017611_kidney | 0 .00 RPM | 5 .35 RPM |
| SRP017611_liver | 0 .00 RPM | 3 .63 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_428 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_428 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_428 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 9 parental genes, and 12 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000030686 | 1 retrocopy |
retro_cfam_428 ,
|
| Dasypus novemcinctus | ENSDNOG00000008950 | 1 retrocopy | |
| Dipodomys ordii | ENSDORG00000012831 | 1 retrocopy | |
| Felis catus | ENSFCAG00000012762 | 2 retrocopies | |
| Microcebus murinus | ENSMICG00000017673 | 1 retrocopy | |
| Myotis lucifugus | ENSMLUG00000011791 | 2 retrocopies | |
| Mus musculus | ENSMUSG00000028480 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000014838 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000009276 | 2 retrocopies |