RetrogeneDB ID: | retro_ptro_2186 | ||
Retrocopy location | Organism: | Chimpanzee (Pan troglodytes) | |
| Coordinates: | 5:120239359..120239932(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MRPL10 | ||
| Ensembl ID: | ENSPTRG00000009337 | ||
| Aliases: | None | ||
| Description: | mitochondrial ribosomal protein L10 [Source:HGNC Symbol;Acc:14055] |
Retrocopy-Parental alignment summary:
>retro_ptro_2186
CAGGAGACGGGCCTCATCAGACTCCTCTGCCGGGAGATAGCAGCAGTTTTCCAGGACAACCGAATGATAGCTATCTGCCA
GAGCGTGGCTCTGAGCGTAGAAGATAAGCTTCTTATGCGACACCAGCGGCGGAAACACAAGATCCTGATGAAGGTCTTCC
ACAACCAGGTCCTGAAGCCCTTCCTGGAGGACTCCAATTACCAAAATCTGCTGCCCCTTTTTGTGGGGCACAACATGCTG
CTGGTCAGTGAAGAGCCCAAGGTCAAGGAGATGGTAAGGATCTTAAGGACTGTGCCATTCCTGCTGCTGCTAGGTGGCTG
CATCAATGACGTAGATGCCATCCTCAGCAGGCAGGGCTTTATCAACTACTCCAGCCTTCCTAGCCTGCCCCTGGCACAGG
GGGAGCTTGTGGGAGGCCTCACCCCACTCATGGCCCAGACCCACTCCCTGCTCCAGCACCAGCCCCTTAAGTTGACCACC
CTATTGGACCAGTACATCAGACAGCAAAGCGAGAAGGATTCTGTCGTGCCGGCCAATGGGAAGCCAGATCCTCCTGACCC
TGTTCCGGACTCG
ORF - retro_ptro_2186 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.43 % |
| Parental protein coverage: | 69.37 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EEIGLIRLLRREIAAVFQDNRMIAVCQNVALSAEDKLLMRHQLRKHKILMKVFPNQVLKPFLEDSKYQNL |
| .E.GLIRLL.REIAAVFQDNRMIA.CQ.VALS.EDKLLMRHQ.RKHKILMKVF.NQVLKPFLEDS.YQNL | |
| Retrocopy | QETGLIRLLCREIAAVFQDNRMIAICQSVALSVEDKLLMRHQRRKHKILMKVFHNQVLKPFLEDSNYQNL |
| Parental | LPLFVGHNMLLVSEEPKVKEMVRILRTVPFLPLLGGCID--DTILSRQGFINYSKLPSLPLVQGELVGGL |
| LPLFVGHNMLLVSEEPKVKEMVRILRTVPFL.LLGGCI...D.ILSRQGFINYS.LPSLPL.QGELVGGL | |
| Retrocopy | LPLFVGHNMLLVSEEPKVKEMVRILRTVPFLLLLGGCINDVDAILSRQGFINYSSLPSLPLAQGELVGGL |
| Parental | TCLTAQTHSLLQHQPLQLTTLLDQYIREQREKDSVMSANGKPD-PDPVPDS |
| T.L.AQTHSLLQHQPL.LTTLLDQYIR.Q.EKDSV..ANGKPD.PDPVPDS | |
| Retrocopy | TPLMAQTHSLLQHQPLKLTTLLDQYIRQQSEKDSVVPANGKPDPPDPVPDS |
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 .11 RPM | 23 .58 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 27 .78 RPM |
| SRP007412_heart | 0 .00 RPM | 32 .03 RPM |
| SRP007412_kidney | 0 .00 RPM | 44 .67 RPM |
| SRP007412_liver | 0 .07 RPM | 24 .35 RPM |
| SRP007412_testis | 1 .26 RPM | 24 .13 RPM |
Pan troglodytes was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ptro_2186 retrocopy.
Pan troglodytes was not studied using FANTOM5 data.
retro_ptro_2186 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ptro_2186 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_3234 |
| Pongo abelii | retro_pabe_2680 |
Parental genes homology:
Parental genes homology involve 6 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000159111 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000001803 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000006173 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000008881 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000009337 | 1 retrocopy |
retro_ptro_2186 ,
|
| Xenopus tropicalis | ENSXETG00000014749 | 1 retrocopy |