RetrogeneDB ID: | retro_cjac_1773 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 2:36381742..36382045(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NTPCR | ||
| Ensembl ID: | ENSCJAG00000018274 | ||
| Aliases: | None | ||
| Description: | nucleoside-triphosphatase, cancer-related [Source:HGNC Symbol;Acc:28204] |
Retrocopy-Parental alignment summary:
>retro_cjac_1773
GATGGATTTTATATACAGGAAGTCAGACGGGGAGGGAGAAGAATAGGATTTGATGTTGTCACATTGTCTGGCATCCCGGG
GCCTTTATTTAGAGTTGGGTAGGAGCCTCCACCTGGAAAATGTGGATGGCAAGTTGTGCATTATGTGGTTAACCTGACTT
ACTTTGAGAAGTTGGTGCTCCTCATCTTGAGGAATGCAGATTCCAGCAGTGGCCCAGGGCAAAGAGTGTGCGTCATTGAT
GAGAGTGGGAAAATGAAACTCTTTAGTCAGCCTTTCATCCAAGCTGTTTGTCAGATGCTGGCA
ORF - retro_cjac_1773 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.28 % |
| Parental protein coverage: | 53.16 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DGFYTEEVRQGGRRIGFDVVTLSGTRGPLSRVGLQPPSGKRECRVGQYVVDLTSFEQLVLPVLRNANSNS |
| DGFY..EVR.GGRRIGFDVVTLSG..GPL.RVG..PP.GK....V..YVV.LT.FE.LVL..LRNA.S.S | |
| Retrocopy | DGFYIQEVRRGGRRIGFDVVTLSGIPGPLFRVG*EPPPGKCGWQVVHYVVNLTYFEKLVLLILRNADSSS |
| Parental | GPGQRVCIIDEIGKMELFSQPFIQAVRQTLS |
| GPGQRVC.IDE.GKM.LFSQPFIQAV.Q.L. | |
| Retrocopy | GPGQRVCVIDESGKMKLFSQPFIQAVCQMLA |
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 | 3 .64 RPM |
| SRP051959_heart | 0 .00 RPM | 4 .88 RPM |
| SRP051959_kidney | 0 .00 RPM | 5 .19 RPM |
| SRP051959_liver | 0 .00 RPM | 5 .52 RPM |
| SRP051959_lung | 0 .00 RPM | 5 .37 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 3 .04 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 4 .63 RPM |
| SRP051959_spleen | 0 .02 RPM | 3 .40 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_1773 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_1773 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_1773 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 7 parental genes, and 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000018274 | 1 retrocopy |
retro_cjac_1773 ,
|
| Felis catus | ENSFCAG00000014211 | 1 retrocopy | |
| Homo sapiens | ENSG00000135778 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000015198 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000012614 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000000108 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000002116 | 1 retrocopy |