RetrogeneDB ID: | retro_ptro_964 | ||
Retrocopy location | Organism: | Chimpanzee (Pan troglodytes) | |
| Coordinates: | 14:37969832..37970129(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RIPPLY3 | ||
| Ensembl ID: | ENSPTRG00000013896 | ||
| Aliases: | None | ||
| Description: | ripply3 homolog (zebrafish) [Source:HGNC Symbol;Acc:3047] |
Retrocopy-Parental alignment summary:
>retro_ptro_964
CCCTGGGGACCATCTCCAGCATGGAGCCTCACAGCGTGGAGACCTGTGATCCTGACACCTGCAGATGCTGAGCTGACCAG
AACTGGAAGCCAGTTTAAACCTGGGGGAGATCAAGAAACTTTTGGATTAAAGGAAGTCTTCAGGTTTCAGCATCCTGTAA
GACTTTACTTACCCTTTTTGAAATGTCAAGAATATTTGCAGTGTTCTGGGGAAAAAGTGCTGGTCAGTTTTCCAGTGCAA
GCCATGATATACTTCTATAACGATGAGTCTGATTCAGATGATGAAGAGCAAGAGGAA
ORF - retro_ptro_964 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.6 % |
| Parental protein coverage: | 52.38 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | PPPPRGPESPAPWRPWIQTPGDAELTRTGRPLEPRADQHTFGSKGAFGFQHPVRVYLPMSKRQEYLRSSG |
| P..P....S...WRP.I.TP.DAELTRTG....P..DQ.TFG.K..F.FQHPVR.YLP..K.QEYL..SG | |
| Retrocopy | PWGPSPAWSLTAWRPVILTPADAELTRTGSQFKPGGDQETFGLKEVFRFQHPVRLYLPFLKCQEYLQCSG |
| Parental | EQVLASFPVQATIDFYDDESTESASEAEE |
| E.VL.SFPVQA.I.FY.DES.....E.EE | |
| Retrocopy | EKVLVSFPVQAMIYFYNDESDSDDEEQEE |
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 |
|---|---|---|
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 0 .20 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 1 .83 RPM |
| SRP007412_heart | 0 .03 RPM | 0 .06 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .44 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .36 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .00 RPM |
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_964 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_964 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ptro_964 has 3 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_1407 |
| Gorilla gorilla | retro_ggor_1091 |
| Pongo abelii | retro_pabe_1163 |
Parental genes homology:
Parental genes homology involve 6 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000036019 | 1 retrocopy | |
| Homo sapiens | ENSG00000183145 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000006091 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000004521 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000011408 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000013896 | 1 retrocopy |
retro_ptro_964 ,
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