RetrogeneDB ID: | retro_pabe_2680 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 5:120912730..120913303(+) | ||
| 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: | ENSPPYG00000008881 | ||
| Aliases: | None | ||
| Description: | mitochondrial ribosomal protein L10 [Source:HGNC Symbol;Acc:14055] |
Retrocopy-Parental alignment summary:
>retro_pabe_2680
CAGGAGACAGGCCTCATCAGCCTTCTCCGCTGGGAGATAGCAGCGGTTTTCCAGGACAACCGAATGATAGCTGTCTGCCA
GAACGTGGCTCTGAGCGCAGAAGACAAGCTTCTTATGCGACACCAGCTGCGGAGACACAAGATCCTGATGAAGGTCTTCC
ACAACCAGGTCCTGAAGCTCTTCCTGGAGGATTCCAAGTACCAAAATCTGCTGCCCCTTTTTGTGGAGTACAACATGCTG
CTGGTCAGTGAAGAGCCCAAGGTCAAGGAGATGGTAAGGATCTTAAGGACTGTGCCATTCCTGCTGCTGCTAGGTGGCTA
CATCAATGACACAGATGCCATCCTCAGCAGGCAGGGCTTTATCAACTACTCCAGCCTTCCCAGCCTGCCCCTGGCACAGG
GGGAGCTTGTGGGAGGCCTCACTCCACTCATGGCCCAGACCCACTCCCTGCTCCAGCACCAGCCCCTGCAGTTGACCACC
CTATTGGACCAGTACATCAGACAGCAAGGCGAGAAGGATTCTGTCGTGTCAGCCAGTGGGAAGCCAGATCCTCCTGACCC
TGTTCCGGACTCG
ORF - retro_pabe_2680 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.96 % |
| Parental protein coverage: | 84.68 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | EETGLIRLLRREIAAVFQDNRMIAVCQNVALSAEDKLLMRHQLRKHKILMKVFPNQVLKPFLEDSKYQNL |
| .ETGLI.LLR.EIAAVFQDNRMIAVCQNVALSAEDKLLMRHQLR.HKILMKVF.NQVLK.FLEDSKYQNL | |
| Retrocopy | QETGLISLLRWEIAAVFQDNRMIAVCQNVALSAEDKLLMRHQLRRHKILMKVFHNQVLKLFLEDSKYQNL |
| Parental | LPLFVGHNMLLVSEEPKVKEMVRILRTVPFLPLLGGCIDDT--ILSRQGFINYSKLPSLPLVQGELVGGL |
| LPLFV..NMLLVSEEPKVKEMVRILRTVPFL.LLGG.I.DT..ILSRQGFINYS.LPSLPL.QGELVGGL | |
| Retrocopy | LPLFVEYNMLLVSEEPKVKEMVRILRTVPFLLLLGGYINDTDAILSRQGFINYSSLPSLPLAQGELVGGL |
| Parental | TRLTAQTHSLLQHQPLQLTTLLDQYIREQREKDSIMSANGKPD-PDPVPDS |
| T.L.AQTHSLLQHQPLQLTTLLDQYIR.Q.EKDS..SA.GKPD.PDPVPDS | |
| Retrocopy | TPLMAQTHSLLQHQPLQLTTLLDQYIRQQGEKDSVVSASGKPDPPDPVPDS |
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 | 32 .07 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 26 .27 RPM |
| SRP007412_heart | 0 .00 RPM | 20 .92 RPM |
| SRP007412_kidney | 0 .00 RPM | 34 .44 RPM |
| SRP007412_liver | 0 .00 RPM | 19 .31 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_2680 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_2680 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_2680 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Homo sapiens | retro_hsap_3234 |
| Pan troglodytes | retro_ptro_2186 |
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 |
retro_pabe_2680 ,
|
| Pan troglodytes | ENSPTRG00000009337 | 1 retrocopy | |
| Xenopus tropicalis | ENSXETG00000014749 | 1 retrocopy |