RetrogeneDB ID: | retro_mmul_1136 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 15:17327398..17327937(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | BCAS4 | ||
| Ensembl ID: | ENSMMUG00000012127 | ||
| Aliases: | None | ||
| Description: | breast carcinoma-amplified sequence 4 [Source:RefSeq peptide;Acc:NP_001253400] |
Retrocopy-Parental alignment summary:
>retro_mmul_1136
CAACCGGACCCCGCCGCCCTCCTGATGCTGCTTGTGAACGCCGATCCGAGCCCGTGCGCAGCGGAGCGCGGGAGCTCGCG
CTCTTCCTGACCCCCGAGCCTGGGGCCGAGGCGAAGGAGGTGGAGGAGACCATCGAGGCCATGCTCCTCAGGCTGGAAGA
GTTTTGCAGCCTGGCTGACCTGATCAGGAGTGATACGTCACAGATCCTGGAGGAAAACATCCCAGTCCTTAAGGCCAAAC
TGACAGAAATGCGTGGCATCTACGCCATAGTGGACCGGCTAGAGGCCTTCGTCAAGATGGTCGGACACCATGTCGCGTTC
CTGGAAGCGGACGTACTTCAGACTGAGCGGGACCATGGGGCCTTCCCGCAGGCCCTGCGGAGGTGGCTGGGATCCGCAGG
GCTCCCCTCCTTCAGGAACAAGTCGCCTGCACCAGTACCCGTGACGTATGAGCTGCCCACGCTGTACAGGACGGAGGACT
ATTTTCCTGCGGACACCAGGGAGGCACAGCACCACCCCCGCACCTGCCCTCGGCCTTTG
ORF - retro_mmul_1136 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.6 % |
| Parental protein coverage: | 89.16 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | QPDSAALLMLLVNADRPEP-VRSGARELALFLTPEPGAEAKEVEETIEGMLLRLEEFCSLADLIRSDTSQ |
| QPD.AALLMLLVNAD.P.P.VRSGARELALFLTPEPGAEAKEVEETIE.MLLRLEEFCSLADLIRSDTSQ | |
| Retrocopy | QPDPAALLMLLVNAD-PSP<VRSGARELALFLTPEPGAEAKEVEETIEAMLLRLEEFCSLADLIRSDTSQ |
| Parental | ILEENIPVLKAKLTEMRGIYAKVDRLEAFVKMVGHHVAFLEADVLQAERDHGAFPQALRRWLGSAGLPSF |
| ILEENIPVLKAKLTEMRGIYA.VDRLEAFVKMVGHHVAFLEADVLQ.ERDHGAFPQALRRWLGSAGLPSF | |
| Retrocopy | ILEENIPVLKAKLTEMRGIYAIVDRLEAFVKMVGHHVAFLEADVLQTERDHGAFPQALRRWLGSAGLPSF |
| Parental | RNKSPAPVPVTYELPTLYRTEDYFPADAREAQHHPRTCPRPL |
| RNKSPAPVPVTYELPTLYRTEDYFPAD.REAQHHPRTCPRPL | |
| Retrocopy | RNKSPAPVPVTYELPTLYRTEDYFPADTREAQHHPRTCPRPL |
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 | 2 .80 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .16 RPM | 7 .38 RPM |
| SRP007412_cerebellum | 0 .06 RPM | 1 .42 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .24 RPM |
| SRP007412_kidney | 0 .00 RPM | 1 .53 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .20 RPM |
| SRP007412_testis | 0 .41 RPM | 1 .39 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1136 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1136 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_1136 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 | ENSMMUG00000012127 | 1 retrocopy |
retro_mmul_1136 ,
|
| Oryctolagus cuniculus | ENSOCUG00000014694 | 1 retrocopy |