RetrogeneDB ID: | retro_ptro_1332 | ||
Retrocopy location | Organism: | Chimpanzee (Pan troglodytes) | |
| Coordinates: | 19:40020658..40021241(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ZNF396 | ||
| Ensembl ID: | ENSPTRG00000009970 | ||
| Aliases: | None | ||
| Description: | zinc finger protein 396 [Source:HGNC Symbol;Acc:18824] |
Retrocopy-Parental alignment summary:
>retro_ptro_1332
CCCCACCACGAAGAGTGTCCACAAGGAGAGCTCCAGCTTCTCTGACTGAGGCCGGAGGTGCACACAAAGGGGCAGATCCT
GGAGCTGCTGGTGCTGGAGCAGTTCCTGGCCATCCTCCCAGAAAAGCTGCAGCCCTGGGTGCTGAGGCATCATCCAGAAA
ATGGAGAGGAAGCTGTGACTATGCTGGAGGATGTGCAGAGAGAGCTTGATGGACCAAAGCAGGTCTTCTTTTTTGGACGA
AGAAAGGGACACGGTTGCAGAGAAGCTAGCACCTTCAGAAATCACTGAGCAATTGCCAACTAGCCAGCACACGCCCGTGA
AGAAGCAGCTCCAGCGAAAATCATGGGAGCTGCAGTCCTTAAGACCACATGATGAAGACATCAAAACTATAAATGTGAAA
TCCGCTTCAAGGCAAAAGACTTCTTCAGGCATAGAACTGCATTGCGATGTTTTGAACATCCTCGGTATAAATCCCTCCCA
GAGTTCCACATATAGAGGAATGTATGAACAAGATGATTCAAAATATGAACACAGGATTGCAGAGTCCCAAAAGAATATGT
ACTTCAAGACTAGGCTGAAGTGT
ORF - retro_ptro_1332 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.82 % |
| Parental protein coverage: | 56.46 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | PHEALSRLRELCHLWLRPEVHTKEQILELLVLEQFLAILPKELQAWVQKHHPENGEETVTMLEDVERELD |
| PH.......EL..L.LRPEVHTK.QILELLVLEQFLAILP..LQ.WV..HHPENGEE.VTMLEDV.RELD | |
| Retrocopy | PHHEECPQGELQLL*LRPEVHTKGQILELLVLEQFLAILPEKLQPWVLRHHPENGEEAVTMLEDVQRELD |
| Parental | GPKQIFF-GRRK-DMIAEKLAPSEITEELPSSQLMPVKKQLQGASWELQSLRPHDEDIKTTNVKSASRQK |
| GPKQ.FF.GRRK.D..AEKLAPSEITE.LP.SQ..PVKKQLQ..SWELQSLRPHDEDIKT.NVKSASRQK | |
| Retrocopy | GPKQVFFFGRRK>DTVAEKLAPSEITEQLPTSQHTPVKKQLQRKSWELQSLRPHDEDIKTINVKSASRQK |
| Parental | TSLGIELHCSVSNILHMNASQSSTYRGTYEQ-DGRFEKR----QGNPSWKKQQKC |
| TS.GIELHC.V.NIL..N.SQSSTYRG.YEQ.D...E.R....Q.N...K...KC | |
| Retrocopy | TSSGIELHCDVLNILGINPSQSSTYRGMYEQDDSKYEHRIAESQKNMYFKTRLKC |
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 | 1 .22 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .75 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .52 RPM |
| SRP007412_kidney | 0 .00 RPM | 3 .69 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .72 RPM |
| SRP007412_testis | 0 .11 RPM | 7 .69 RPM |
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_1332 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_1332 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ptro_1332 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_1996 |
| Gorilla gorilla | retro_ggor_1443 |
Parental genes homology:
Parental genes homology involve 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000186496 | 1 retrocopy | |
| Gorilla gorilla | ENSGGOG00000023692 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000009107 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000009970 | 1 retrocopy |
retro_ptro_1332 ,
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