RetrogeneDB ID: | retro_cjac_2666 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 5:130451175..130451413(-) | ||
| Located in intron of: | ENSCJAG00000013483 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSCJAG00000032817 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_2666
ACACATATACCAACACACCTACACATGCACACACATACACCTACACATATGTACAACACACACGCACACACACCTACATA
CAGACATGCCTACATATATGAAACACACATGCACACACACTAACACACACCTACATACATGCAGCCACACATGCATACAT
ACTGACACACACCTACACATGTGCTCACACCTACATACCAAGACATACCTACACAGGCACACACATACCAACACACAC
ORF - retro_cjac_2666 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.57 % |
| Parental protein coverage: | 75.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | THADTHLHTLHTCLHTPTHTY-TQTRTHLHTHADTQTRPHTCTDTSTCTHAQTHR--HAQTHLHTCTHRH |
| TH..THLH..HT..HTPTH.Y.T.T.THLHT...T....HTCT.T.T..H...H...H..THLH.C.H.H | |
| Retrocopy | THIPTHLH-MHT--HTPTHMY>THTHTHLHTDMPTYMK-HTCTHTNTHLHTCSHTCIHTDTHLHMCSHLH |
| Parental | THRHRHRHIHTHAH |
| T....HRH.HT..H | |
| Retrocopy | TKTYLHRHTHTNTH |
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 .09 RPM |
| SRP051959_heart | 0 .00 RPM | 0 .40 RPM |
| SRP051959_kidney | 0 .00 RPM | 0 .07 RPM |
| SRP051959_liver | 0 .00 RPM | 0 .00 RPM |
| SRP051959_lung | 0 .02 RPM | 0 .52 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 0 .05 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 0 .13 RPM |
| SRP051959_spleen | 0 .00 RPM | 0 .02 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_2666 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_2666 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_2666 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000032817 | 1 retrocopy |
retro_cjac_2666 ,
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