RetrogeneDB ID: | retro_mmul_1530 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 2:107282213..107283828(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMMUG00000011382 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CWF19L1 | ||
| Ensembl ID: | ENSMMUG00000018472 | ||
| Aliases: | None | ||
| Description: | CWF19-like protein 1 [Source:RefSeq peptide;Acc:NP_001253663] |
Retrocopy-Parental alignment summary:
>retro_mmul_1530
ATGGCACAGAAACCGCTGCGCCTCTTGGCTTGTGGAGATGTTGAAGGAAAATTTGATATTTTGTTCAATAGAGTTCGAGC
AATTCAGAAGAAAAGTGGAAACTTTGATCTGCTGTTGTGTGTAGGAAATTTCTTTGGCTCCACCCCAGATGCTGAATGGG
AGGAGTATAAGACTGGCATCAAGAAAGCTCCTATTCAGACATATGTGCTTGGTGCTAATAACCAGGAAACAGTAAAATAT
TTCCAGGATGCTGATGGATGTGAATTAGCTGAAAACGTTACTTATCTGGGTCGTAAAGGTATCTTCACTGGAAGCTCGGG
GCTGCAGATTGTGTACCTCAGTGGCACAGAGTCCTTAAATGAGCCAGTACCAGGTTATAATTTTAGTCCCAAGGATGTGT
CTTCTCTGAGAACGATGCTGTGTACAACCTCCCAGTTTAAGGGTGTTGATATCTTGCTCACATCCCCGTGGCCCAAGTAT
GTGGGGAACTTTGGGAATTCTTCTGGAGAAGTGGATACCAAAAAATGTGGTTCTGCTTTGGTTTCCAGTCTTGCCATGGG
CTTGAAACCAAGATATCATTTTGCTGCTTTGGAAAATACCTATTATGAGAGGCTTCCATATCGAAACCATATCGTTCCAC
AGGAAAATGCACAGCATGCCACCCGGTTTATAGCTCTGGCAAATGTTGGAAATCCAGAAAAGAAAAAGTTATCCTTATGC
ATTTAGTATTGTTCCCTTGAAGCTGATGGATGCAGCAGAACTGGTAAAACAGCCTCCGGATGTCACTGAAAACCCTTACA
GAAAATCTGGGCAGGAAGCATCCATAGGAAAGCAAATTTCTGCCCCTGTGGAAGAATCAGCCTGTCAGTTTTTCTTTGAT
TTAAATGAAAAGCAGGGAAGGAAGCATTCATCCACAGGTAGAGATAGCAAATCTTCTCCTCACCCAAAGCAGCCTCGCAA
ACCTCCTTAGCCTCCAGGACCCTGCTGGTTTTGCCTTGCTAGCCCTGAAGTGGAAAAGCATTTGGTGGTCAACATCGGCA
CACATTGCTACCTCGCCCTGGCCAAAGGAGGCTTATCTGATGACCATGTCCTCATCCTGCCCATTGGACACTACCAGTCA
GTGGTGGAGCTTTCAGCAGAGGAGGTAGAAGAGGTGGAGACGTATAAGGCCACACTGAGACGGTTCTTTAAGAGTCGAGG
GAAACGGTGTGTTGTATTTGAGAGAAATTATAAGAGCCATCACCTCCAGCTACAGGTCATTCCTGTCCCAGTCAGCTGCT
GTGCTACTGATGACATTAAAGATGCCTTCATTACCCAGGCCCAGGAGCAGCAGATAGAGCTGTTGGAAATCCCAGAGCAC
TCTGACATCAAGCAGATTGCACAGCCAGGAGCCGCATATTTTTATGTTGAACTTGACACAGGAGAAAAGCTTTTCCACAG
AATTAAAAAGAATTTTCCTTTGCAGTTTGGAAGGGAGGTCCTGGCCAGTGAAGCCATCCTTAATATTCCGGGTAAGTCTG
ACTGGAGGCAGTGTCAGATCAGTAAGGAAGATGAGGAGACCCTGGCTCGCTGCTTCCAGAAAGACTTTGAGCCCTATGAC
TTTACTCTGGATGAC
ORF - retro_mmul_1530 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 97.22 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAQKPLRLLACGDVDGKFDILFNRVRAIQKKSGNFDLLLCVGNFFGSTPDAEWEEYKTGIKKAPIQTYVL |
| MAQKPLRLLACGDV.GKFDILFNRVRAIQKKSGNFDLLLCVGNFFGSTPDAEWEEYKTGIKKAPIQTYVL | |
| Retrocopy | MAQKPLRLLACGDVEGKFDILFNRVRAIQKKSGNFDLLLCVGNFFGSTPDAEWEEYKTGIKKAPIQTYVL |
| Parental | GANNQETVKYFQDADGCELAENITYLGRKGIFTGSSGLQIVYLSGTESLNEPVPGYNFSPKDVSSLRTML |
| GANNQETVKYFQDADGCELAEN.TYLGRKGIFTGSSGLQIVYLSGTESLNEPVPGYNFSPKDVSSLRTML | |
| Retrocopy | GANNQETVKYFQDADGCELAENVTYLGRKGIFTGSSGLQIVYLSGTESLNEPVPGYNFSPKDVSSLRTML |
| Parental | CTTSQFKGVDILLTSPWPKYVGNFGNSSGEVDTKKCGSALVSSLAMGLKPRYHFAALEKTYYERLPYRNH |
| CTTSQFKGVDILLTSPWPKYVGNFGNSSGEVDTKKCGSALVSSLAMGLKPRYHFAALE.TYYERLPYRNH | |
| Retrocopy | CTTSQFKGVDILLTSPWPKYVGNFGNSSGEVDTKKCGSALVSSLAMGLKPRYHFAALENTYYERLPYRNH |
| Parental | VVLQENAQHATRFIALANVGNPEKKK-YLYAFSIVPMKLMDAAELVKQPPDVTENPYRKSGQEASIGKQI |
| .V.QENAQHATRFIALANVGNPEKKK.Y.YAFSIVP.KLMDAAELVKQPPDVTENPYRKSGQEASIGKQI | |
| Retrocopy | IVPQENAQHATRFIALANVGNPEKKK>YPYAFSIVPLKLMDAAELVKQPPDVTENPYRKSGQEASIGKQI |
| Parental | PAPVEESACQFFFDLNEKQGRKRSSTGRDSK-SPHPKQPRKPPQPPGPCWFCLASPEVEKHLVVNIGTHC |
| .APVEESACQFFFDLNEKQGRK.SSTGRDSK.SPHPKQPRKPP.PPGPCWFCLASPEVEKHLVVNIGTHC | |
| Retrocopy | SAPVEESACQFFFDLNEKQGRKHSSTGRDSKSSPHPKQPRKPP*PPGPCWFCLASPEVEKHLVVNIGTHC |
| Parental | YLALAKGGLSDDHVLILPIGHYQSVVELSAEVVEEVEKYKATLRRFFKSRGKRCVVFERNYKSHHLQLQV |
| YLALAKGGLSDDHVLILPIGHYQSVVELSAE.VEEVE.YKATLRRFFKSRGKRCVVFERNYKSHHLQLQV | |
| Retrocopy | YLALAKGGLSDDHVLILPIGHYQSVVELSAEEVEEVETYKATLRRFFKSRGKRCVVFERNYKSHHLQLQV |
| Parental | IPVPVSCCATDDIKDAFITQAQEQQIELLEIPEHSDIKQIAQPGAAYFYVELDTGEKLFHRIKKNFPLQF |
| IPVPVSCCATDDIKDAFITQAQEQQIELLEIPEHSDIKQIAQPGAAYFYVELDTGEKLFHRIKKNFPLQF | |
| Retrocopy | IPVPVSCCATDDIKDAFITQAQEQQIELLEIPEHSDIKQIAQPGAAYFYVELDTGEKLFHRIKKNFPLQF |
| Parental | GREVLASEAILNIPGKSDWRQCQISKEDEETLARRFQKDFEPYDFTLDD |
| GREVLASEAILNIPGKSDWRQCQISKEDEETLAR.FQKDFEPYDFTLDD | |
| Retrocopy | GREVLASEAILNIPGKSDWRQCQISKEDEETLARCFQKDFEPYDFTLDD |
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 .22 RPM | 9 .52 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 10 .87 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 10 .85 RPM |
| SRP007412_heart | 0 .00 RPM | 3 .53 RPM |
| SRP007412_kidney | 0 .12 RPM | 6 .46 RPM |
| SRP007412_liver | 0 .04 RPM | 3 .01 RPM |
| SRP007412_testis | 0 .15 RPM | 16 .92 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1530 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1530 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1530 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macaca mulatta | ENSMMUG00000018472 | 1 retrocopy |
retro_mmul_1530 ,
|