RetrogeneDB ID: | retro_mmul_2122 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 6:176271019..176271553(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MMU.4000 | ||
| Ensembl ID: | ENSMMUG00000008627 | ||
| Aliases: | None | ||
| Description: | PRA1 family protein 3 [Source:RefSeq peptide;Acc:NP_001244688] |
Retrocopy-Parental alignment summary:
>retro_mmul_2122
ATCACCCCACTCCACACCTGGGATGACTTCTTCCCCAGCTCCGATCACTTTGCCTGGCCGGACTTCAGGGACATTTGCAA
ATGGAACAACCACGTGGTGAGCAACCTGCTCTGTTGCCAGACCAACTACCTGGTGGTGGCTGCCATGATGATTTCCGTCG
TGGGGTTTCTGAGTCCCTTCAACATGATCCTGGGAGGAATCGTGGTGGTGCTGGCGTTCACAGTGTTTGTGTGAGCAGCC
CACAATAAAGACATCCTTCGCCGGATGAAGAAGCGCCACCCTACGACGTTCCTTATGGTGGTCATGTTCACCAGCTATTT
CCTTATATCCATGTCTGGAGGAGTCATGGTCTTTGTGTTTGGCATCACTTTTCCTTGGTTGTTGATGTTTATCCATGCAT
CGTTGAGACTGTGGAACCTCAGGAACACACTGGAGAATAAAATGGAAGGAATAGGTTTGAAGAGGACACCAACGGGCATT
GTCCTGGATGCCCTACAAGAGCAGGAAGAAGACCGCAACAGACTCACTGACTAT
ORF - retro_mmul_2122 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 83.71 % |
| Parental protein coverage: | 94.68 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | IAPLRAWDDFFPGSDRFARPDFRDISKWNNRVVSNLLYYQTNYLVVAAMMISVVGFLSPFNMILGGIVVV |
| I.PL..WDDFFP.SD.FA.PDFRDI.KWNN.VVSNLL..QTNYLVVAAMMISVVGFLSPFNMILGGIVVV | |
| Retrocopy | ITPLHTWDDFFPSSDHFAWPDFRDICKWNNHVVSNLLCCQTNYLVVAAMMISVVGFLSPFNMILGGIVVV |
| Parental | LVFTGFVWAAHNKDALRRLKKRYPTTFVMVVMLASYFLISMFGGVMVFVFGITFPLLLMFIHASLRLRNL |
| L.FT.FV.AAHNKD.LRR.KKR.PTTF.MVVM..SYFLISM.GGVMVFVFGITFP.LLMFIHASLRL.NL | |
| Retrocopy | LAFTVFV*AAHNKDILRRMKKRHPTTFLMVVMFTSYFLISMSGGVMVFVFGITFPWLLMFIHASLRLWNL |
| Parental | KNKLENKMEGIGLKRTPMGIVLDALEQQEEGINRLTDY |
| .N.LENKMEGIGLKRTP.GIVLDAL..QEE..NRLTDY | |
| Retrocopy | RNTLENKMEGIGLKRTPTGIVLDALQEQEEDRNRLTDY |
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 | 0 .11 RPM | 133 .12 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 115 .11 RPM |
| SRP007412_cerebellum | 0 .06 RPM | 112 .10 RPM |
| SRP007412_heart | 0 .00 RPM | 192 .50 RPM |
| SRP007412_kidney | 0 .00 RPM | 64 .79 RPM |
| SRP007412_liver | 0 .00 RPM | 22 .84 RPM |
| SRP007412_testis | 0 .11 RPM | 18 .70 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_2122 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_2122 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_2122 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000008627 | 1 retrocopy |
retro_mmul_2122 ,
|
| Tupaia belangeri | ENSTBEG00000001491 | 1 retrocopy |