RetrogeneDB ID: | retro_cfam_2119 | ||
Retrocopy location | Organism: | Dog (Canis familiaris) | |
| Coordinates: | X:100568125..100568591(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MPV17 | ||
| Ensembl ID: | ENSCAFG00000032367 | ||
| Aliases: | None | ||
| Description: | MpV17 mitochondrial inner membrane protein [Source:HGNC Symbol;Acc:7224] |
Retrocopy-Parental alignment summary:
>retro_cfam_2119
CTAACAGTTGGGTTCCTTATGGGCCTGGGTGACATTATCTCATGGCAGCTGGTAGAGAGGTTAGGTCTGTAGGAACATCA
GACTGGCTGGACCCTGACCATGGTCTCTCTGGGCTGCGGCTTGTGGGCCCTGTAGTCAGAGGCTGGTACGGGGTTTTGAA
CCAGTTCATCCACAGCACCACCAAGGTAGATGCAGTAAAGAAGATGCTATTGGATCTGGGGGGCTTTGCCCCATGTTTTC
TAGGCCGTTTCCTTCGACTGGTAAGAGCACTCAATGGACTCTCAGCCCAGGACAACTGGGCCAAGTTACAGCAAGACTAT
TGTGATGCCCTCATCACCAACTATTATCTGGCCTGCCATGAATTTAAGCCAACTTCTAGCTGGTTCCCCTTCATTACGTA
TTAGCTATTGTCCAGTGTGTTGCTCTTATCTGGAACTCCTACCTCTTCTGGAAGGTACACCAGCTC
ORF - retro_cfam_2119 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 71.7 % |
| Parental protein coverage: | 88.64 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | LTAGSLMGLGDIISQQLVEKRGLRGHQTGRTLTMAFLGCGF-VGPVVGGWYRVLDRLIPGTAKADALKKM |
| LT.G.LMGLGDIIS.QLVE..GL..HQTG.TLTM..LGCG..VGPVV.GWY.VL...I..T.K.DA.KKM | |
| Retrocopy | LTVGFLMGLGDIISWQLVERLGL*EHQTGWTLTMVSLGCGL<VGPVVRGWYGVLNQFIHSTTKVDAVKKM |
| Parental | LLDQGGFAPCFLGCFLPLVGALNGLSAQDNWAKLRRDYPDALLTNYY-LWPAVQL-ANFYLVPLHYRLAV |
| LLD.GGFAPCFLG.FL.LV.ALNGLSAQDNWAKL..DY.DA.L...Y..WPA..L.ANF.LVPLHY.LA. | |
| Retrocopy | LLDLGGFAPCFLGRFLRLVRALNGLSAQDNWAKLQQDYCDA-LITNY>IWPAMNL>ANF*LVPLHYVLAI |
| Parental | VQCVAVIWNSYLSWKAHRL |
| VQCVA.IWNSYL.WK.H.L | |
| Retrocopy | VQCVALIWNSYLFWKVHQL |
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 | 12 .43 RPM |
| SRP017611_brain | 0 .00 RPM | 6 .83 RPM |
| SRP017611_kidney | 0 .07 RPM | 9 .18 RPM |
| SRP017611_liver | 0 .00 RPM | 1 .81 RPM |
Canis familiaris was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cfam_2119 retrocopy.
Canis familiaris was not studied using FANTOM5 data.
retro_cfam_2119 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cfam_2119 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000032367 | 1 retrocopy |
retro_cfam_2119 ,
|
| Felis catus | ENSFCAG00000015150 | 1 retrocopy |