RetrogeneDB ID: | retro_cjac_655 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 1:201653581..201653956(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCJAG00000004761 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NUDT3 | ||
| Ensembl ID: | ENSCJAG00000015243 | ||
| Aliases: | None | ||
| Description: | nudix (nucleoside diphosphate linked moiety X)-type motif 3 [Source:HGNC Symbol;Acc:8050] |
Retrocopy-Parental alignment summary:
>retro_cjac_655
ATGATGAAGCTCAAGTCGAACCAGACCCGCACCTATGATGGCGATGGCTACAAGAAGCAGGCCGCATGCCTGTGTTTCCG
CAGCGAGAGCGAGGAGGAGGTGCTACTCGTGAGCAGTAGTTGCCATCCAGACAGGTGGATTGTCTCTGGAGGAGGCATGG
AGCCCCAGGAGGAGCCAAGTGTGGCAGCAGTTCGTGAAGTCTGTGAGGAGGCTGCAGTAAAAGGGACATTGGGAAGATTA
GTTGGAATTTTTGAGAACCGGGAGAGAAAGCACAGGACGTATGTCTATGTGCTCATTGTCACTGAAGTGCTGGAAGACTG
GGAAGACTCAGTGAACATTGGAAGGAAGAGGGAATGGTTTAAAATAGAAGACGCT
ORF - retro_cjac_655 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.2 % |
| Parental protein coverage: | 72.67 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MMKLKSNQTRTYDGDGYKKRAACLCFRSESEEEVLLVSSSRHPDRWIVPGGGMEPEEEPSVAAVREVCEE |
| MMKLKSNQTRTYDGDGYKK.AACLCFRSESEEEVLLVSSS.HPDRWIV.GGGMEP.EEPSVAAVREVCEE | |
| Retrocopy | MMKLKSNQTRTYDGDGYKKQAACLCFRSESEEEVLLVSSSCHPDRWIVSGGGMEPQEEPSVAAVREVCEE |
| Parental | AGVKGTLGRLVGIFENQERKHRTYVYVLIVTEVLEDWEDSVNIGRKREWFKIEDA |
| A.VKGTLGRLVGIFEN.ERKHRTYVYVLIVTEVLEDWEDSVNIGRKREWFKIEDA | |
| Retrocopy | AAVKGTLGRLVGIFENRERKHRTYVYVLIVTEVLEDWEDSVNIGRKREWFKIEDA |
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 .04 RPM | 10 .49 RPM |
| SRP051959_heart | 0 .07 RPM | 12 .17 RPM |
| SRP051959_kidney | 0 .07 RPM | 11 .96 RPM |
| SRP051959_liver | 0 .04 RPM | 9 .18 RPM |
| SRP051959_lung | 0 .07 RPM | 15 .16 RPM |
| SRP051959_lymph_node | 0 .09 RPM | 14 .79 RPM |
| SRP051959_skeletal_muscle | 0 .02 RPM | 9 .98 RPM |
| SRP051959_spleen | 0 .13 RPM | 16 .85 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_655 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_655 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_655 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 | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000015243 | 1 retrocopy |
retro_cjac_655 ,
|
| Otolemur garnettii | ENSOGAG00000034590 | 1 retrocopy |