RetrogeneDB ID: | retro_mmul_2276 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 7:168912985..168913697(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ELK1 | ||
| Ensembl ID: | ENSMMUG00000019420 | ||
| Aliases: | None | ||
| Description: | ETS domain-containing protein Elk-1 [Source:RefSeq peptide;Acc:NP_001244117] |
Retrocopy-Parental alignment summary:
>retro_mmul_2276
ATGGACCCATCTGTGACGCTGTGGCAGTTTCTGCTACATCTGCCGAGAGAGCAAGGCAATGGCCACATCTCCTGGACTTC
ACGGGATGGTGGTGAATTCAAGCTGGTGGATGCAGAGGAGGCGGCCCGGCTGTAGGGGCTACGCAAGAACAAGAGCACCA
TGAATTACGACAAGCTCGCCGGGCCCTGCCGTACTACCATCACAGGAACATCGTCCGCAAGGAGAGCGGCCAGAAGCTCG
TCTACAAGTCAGTGTCCTACCTGAGGTCGCAGGGTGCTCCACCGAGGACTGCCCGCCCCAACCAGCCGTGTCTGTTACCT
CCGCCATGGCAAATGTGGCCCCTGCTGCCGTACCTGCCGCCCCAGGGAACACTGTCTCAGGAAAGCCGGGCACACCCAAG
GCTGCAGGAAGGGCAGGCCCTGGCGGTTTGGCGCGCAGCAGCCGGAACAAGTACCTGCGCTCGGGCCTCTCTTCCACCCG
CACCATCCAGTCTCTGCAGCCACAGCCGCCCCCTCGGCCTCCGCCTGCTGTGCCGCTCCCCAGCGCCGCTCCCGCAGGAG
CAGCAGCGCCCCCGGGGAGCAGGAGCCCCAGTCCCAGCCGCCTGCAGGCCCGCCTGGAGGCTGAGGAGGCCCGCTTGCCT
CTGCAGGTCATCCTGACCCGGCCCGAGGCCCCAAACCTGAAATCGGAAGAGCTGAAAGTGGAGCTGGGTTTG
ORF - retro_mmul_2276 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.23 % |
| Parental protein coverage: | 56.07 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | MDPSVTLWQFLLQLLREQGNGHIISWTSRDGGEFKLVDAEEVARLWGLRKNKTNMNYDKLS-RALRYYYD |
| MDPSVTLWQFLL.L.REQGNGHI.SWTSRDGGEFKLVDAEE.ARL.GLRKNK..MNYDKL..RAL.YY.. | |
| Retrocopy | MDPSVTLWQFLLHLPREQGNGHI-SWTSRDGGEFKLVDAEEAARL*GLRKNKSTMNYDKLA<RALPYYHH |
| Parental | KNIIRKVSGQKFVYKFVSY-PEVAGCSTEDCPPQPEVSVTSAMPNVAPAAVHATPGDTASGKPGTPKGAG |
| .NI.RK.SGQK.VYK.VSY.PEVAGCSTEDCPPQP.VSVTSAM.NVAPAAV.A.PG.T.SGKPGTPK.AG | |
| Retrocopy | RNIVRKESGQKLVYKSVSY<PEVAGCSTEDCPPQPAVSVTSAMANVAPAAVPAAPGNTVSGKPGTPKAAG |
| Parental | MAGPGGLARSSRNEYMRSGLYSTFTIQSLQPQPPPHPRPAVVLPNAAPAGAAAPPSGSRSTSPSPLEACL |
| .AGPGGLARSSRN.Y.RSGL.ST.TIQSLQPQPPP.P.PAV.LP.AAPAGAAAPP.GSRS.SPS.L.A.L | |
| Retrocopy | RAGPGGLARSSRNKYLRSGLSSTRTIQSLQPQPPPRPPPAVPLPSAAPAGAAAPP-GSRSPSPSRLQARL |
| Parental | EAEEAGLPLQVILTPPEAPNLKSEELNVEPGL |
| EAEEA.LPLQVILT.PEAPNLKSEEL.VE.GL | |
| Retrocopy | EAEEARLPLQVILTRPEAPNLKSEELKVELGL |
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 .00 RPM | 15 .46 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .00 RPM | 55 .85 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 15 .56 RPM |
| SRP007412_heart | 0 .06 RPM | 5 .12 RPM |
| SRP007412_kidney | 0 .12 RPM | 4 .69 RPM |
| SRP007412_liver | 0 .00 RPM | 10 .17 RPM |
| SRP007412_testis | 0 .26 RPM | 17 .49 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_2276 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_2276 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_2276 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 5 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Homo sapiens | ENSG00000126767 | 2 retrocopies | |
| Gorilla gorilla | ENSGGOG00000008714 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000019420 | 2 retrocopies |
retro_mmul_1559, retro_mmul_2276 ,
|