RetrogeneDB ID: | retro_cjac_2882 | ||
Retrocopylocation | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 7:56599923..56600430(+) | ||
| Located in intron of: | ENSCJAG00000005832 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCJAG00000010339 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_2882
GGAAGGAAGGGAAGGAGGGAAGGAAGGAAGGAGGGAGAGAGGAAAGAAGGAAGGGAGGGAAGGATGAAGGAAGGGAGGAG
AGAGAGGGAAGAAGAAAGGAGGGAAGTAGGAGGGAAGGAAGGATGGAGATAGGGAAGGACGGAAGGAGGGAGGGAAGGGA
GAGAGGAAGGGAGGGGGGAGGGAAAGAAGAAAGGAGGGAATGAAGGAAGGAGGAAAGAAGAAGGAAGGGGGAGGGGAGGA
GAGAGATGAGGAATGGAGGGAAGGGAGGAAGGGAAGGAAGGACAGAGGGAAAAAGGGAGGGAGGGAAGGAGGGAAAAAGG
AAGAAAGGAGGAAAGGGAGAGAGAAATGAAGGGAAGGAGAAGGAAGGAAAAGGGAAGGGAAGGAGAGAAGGAGGAAAGGG
AGAGGGAAGGAAGGAGGGAAGGGAGAGAAGGAGGGAGGTGGTGGTGGAGGAAGAGGGGGAGGAAGAGGGGGAGGAAGGGA
GGGAGAGAGGGAGGGAGGAAGGAAGGA
GGAAGGAAGGGAAGGAGGGAAGGAAGGAAGGAGGGAGAGAGGAAAGAAGGAAGGGAGGGAAGGATGAAGGAAGGGAGGAG
AGAGAGGGAAGAAGAAAGGAGGGAAGTAGGAGGGAAGGAAGGATGGAGATAGGGAAGGACGGAAGGAGGGAGGGAAGGGA
GAGAGGAAGGGAGGGGGGAGGGAAAGAAGAAAGGAGGGAATGAAGGAAGGAGGAAAGAAGAAGGAAGGGGGAGGGGAGGA
GAGAGATGAGGAATGGAGGGAAGGGAGGAAGGGAAGGAAGGACAGAGGGAAAAAGGGAGGGAGGGAAGGAGGGAAAAAGG
AAGAAAGGAGGAAAGGGAGAGAGAAATGAAGGGAAGGAGAAGGAAGGAAAAGGGAAGGGAAGGAGAGAAGGAGGAAAGGG
AGAGGGAAGGAAGGAGGGAAGGGAGAGAAGGAGGGAGGTGGTGGTGGAGGAAGAGGGGGAGGAAGAGGGGGAGGAAGGGA
GGGAGAGAGGGAGGGAGGAAGGAAGGA
ORF - retro_cjac_2882 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.58 % |
| Parental protein coverage: | 99.39 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | GGNGEKEGRKEG--RKGREGGRNEGAREREGEEGKREGKGG-REGGKEGRK-GRERGRKEGGRE-REGEE |
| G..G..EGRKEG....GREG...EG.RERE.E.....GK.G..E.GK.GR..GRERGR..GG.E...G.E | |
| Retrocopy | GRKGRREGRKEGERKEGREGRMKEGRREREEERREVGGKEG<MEIGKDGRREGRERGREGGGKE>KGGNE |
| Parental | GKR--EGRREGGKEGRKKERKREREREKEREREREREREREERKERKRKKERKRKEGRKEGKRERERE-R |
| G.R..EGR..GG.......R....E...E..RE..RE..R.E..ER..K..R....GR...K.ERERE.R | |
| Retrocopy | GRRKEEGRGRGGER*GMEGREEGKEGQREKGREGRREKGRKEEREREMKGRRRKEKGREGEKEEREREGR |
| Parental | KEGRKEGRFEEERKEGRKEGRKEGRKEGRKEG |
| .EGR..GR....RK.GRK.GRK.GR..GRKEG | |
| Retrocopy | REGREGGRW-WWRKRGRKRGRKGGREGGRKEG |
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 |
|---|---|---|
| SRP051959_colon | 0 .00 RPM | 0 .00 RPM |
| SRP051959_heart | 0 .00 RPM | 0 .00 RPM |
| SRP051959_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP051959_liver | 0 .00 RPM | 0 .00 RPM |
| SRP051959_lung | 0 .00 RPM | 0 .00 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 0 .00 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 0 .00 RPM |
| SRP051959_spleen | 0 .00 RPM | 0 .00 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_2882 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_2882 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_2882 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 9 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000010339 | 9 retrocopies |
retro_cjac_1356, retro_cjac_2297, retro_cjac_2882 , retro_cjac_3255, retro_cjac_3637, retro_cjac_3700, retro_cjac_3728, retro_cjac_386, retro_cjac_420,
|