RetrogeneDB ID: | retro_mmul_545 | ||
Retrocopy location | Organism: | Rhesus macaque (Macaca mulatta) | |
| Coordinates: | 1:162652081..162653106(-) | ||
| Located in intron of: | ENSMMUG00000013596 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ABHD4 | ||
| Ensembl ID: | ENSMMUG00000009441 | ||
| Aliases: | None | ||
| Description: | abhydrolase domain-containing protein 4 [Source:RefSeq peptide;Acc:NP_001247685] |
Retrocopy-Parental alignment summary:
>retro_mmul_545
ATGGCCGATGATCTGGAGCAGCATCCTCAAGGCTGGCTGAGTAATTGGCTGCCCACGTGGCGCCCCACTTCCATGTCTCA
GCTGAAGAATGTGGAAGCCAGGATCCTCCAGTGTCTCCAGAATAAGTTCCTGGCCAGATATGTATCCCTCCCAAACCAGA
ATAAGATCTGGACAGTGACTATGAGCCCCGAGCAAAAGGACCACACCCCGCTGGTGATGGTGCACGGTTTTGGGGGCAGC
GTGGGCCTCTGGGTCCTCAACATGGACTCACTGAGTGCCCGCTGCACACTGCACACCTTCCATCTGCTTGACTTCGGGCG
ATGCTCAAGGCCAGCATTCCCGAGGGACCTGGAGGGGGCTGAGGATGAGTTTGTGACATCGATAGAGACGTGGCAGGAGA
CCATAGGGATCCCCAGCATGACCCTCCTGGGGCACAGTTTGGGAGGATTCCTGGCCACTTCTTACTCAATCAAGTACCCT
GATAGAGTTAAACACCTCATCCTGGTGGACTCATGGGGCTTTCCCCTCTGACCAACTAACCCCAGTGAGATCCGTGCACC
CCCAACCTGGGTCAAAGCTGTGGCATCTGTCCTAGGACGTTCCAATCCATTGGCTGTTCTTCGAGTAGCTGGGCCCTGGG
GGCCTGGCCTGGTGCAGCGATTCTCGCCGGATTCAAACGCAAGTTTGTAGACTTCTTTGAAGATGATACCATATCAGAGT
ATATCTATCACTGCAATGCACAGAATCCCAGTGGTGAGACGGTATTCAAAGCCATGATGGAGTCCTTTGGCTGGGCCCAG
CACCCTATGCTGGAGCGAATTCACTTGATTTGAAAAGGTGTGCCCATCACCATGATCTATGGGTCCAACACCTGGATAGA
TACCAGTACGGGAAAAAAGGTGAAGATGCAGGGGCCGGATTCCTATGTCGGAGACATGGAGATTGAGGGTGCATCTCACC
ACGTCTATGCTGACCAGCCACACATCTTCAATGCTGTAGTGGAGAAGATCTGCGACTCAGTTGAT
ORF - retro_mmul_545 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 92.13 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MADDLEQQPQGWLSSWLPTWRPTSMSQLKNVEARILQCLQNKFLARYVSLPNQNKIWTVTVSPEQKDRTP |
| MADDLEQ.PQGWLS.WLPTWRPTSMSQLKNVEARILQCLQNKFLARYVSLPNQNKIWTVT.SPEQKD.TP | |
| Retrocopy | MADDLEQHPQGWLSNWLPTWRPTSMSQLKNVEARILQCLQNKFLARYVSLPNQNKIWTVTMSPEQKDHTP |
| Parental | LVMVHGFGGGVGLWILNMDSLSARRTLHTFDLLGFGRSSRPAFPRDPEGAEDEFVTSIETWRETMGIPSM |
| LVMVHGFGG.VGLW.LNMDSLSAR.TLHTF.LL.FGR.SRPAFPRD.EGAEDEFVTSIETW.ET.GIPSM | |
| Retrocopy | LVMVHGFGGSVGLWVLNMDSLSARCTLHTFHLLDFGRCSRPAFPRDLEGAEDEFVTSIETWQETIGIPSM |
| Parental | ILLGHSLGGFLATSYSIKYPDRVKHLILVDPWGFPLRPTNPSEIRAPPTWVKAVASVLGRSNPLAVLRVA |
| .LLGHSLGGFLATSYSIKYPDRVKHLILVD.WGFPL.PTNPSEIRAPPTWVKAVASVLGRSNPLAVLRVA | |
| Retrocopy | TLLGHSLGGFLATSYSIKYPDRVKHLILVDSWGFPL*PTNPSEIRAPPTWVKAVASVLGRSNPLAVLRVA |
| Parental | GPWGPGLVQRFRPD-FKRKFADFFEDDTISEYIYHCNAQNPSGETAFKAMMESFGWARRPMLERIHLIRK |
| GPWGPGLVQRF.PD.FKRKF.DFFEDDTISEYIYHCNAQNPSGET.FKAMMESFGWA..PMLERIHLI.K | |
| Retrocopy | GPWGPGLVQRFSPD<FKRKFVDFFEDDTISEYIYHCNAQNPSGETVFKAMMESFGWAQHPMLERIHLI*K |
| Parental | DVPITMIYGSNTWIDTSTGKKVKMQRPDSYVRDMEIEGASHHVYADQPHIFNAVVEEICDSVD |
| .VPITMIYGSNTWIDTSTGKKVKMQ.PDSYV.DMEIEGASHHVYADQPHIFNAVVE.ICDSVD | |
| Retrocopy | GVPITMIYGSNTWIDTSTGKKVKMQGPDSYVGDMEIEGASHHVYADQPHIFNAVVEKICDSVD |
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 | 4 .59 RPM |
| SRP007412_brain_prefrontal_cortex | 0 .16 RPM | 9 .68 RPM |
| SRP007412_cerebellum | 0 .19 RPM | 5 .04 RPM |
| SRP007412_heart | 0 .24 RPM | 11 .36 RPM |
| SRP007412_kidney | 0 .70 RPM | 22 .42 RPM |
| SRP007412_liver | 0 .44 RPM | 12 .98 RPM |
| SRP007412_testis | 7 .35 RPM | 31 .81 RPM |
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_545 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_545 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmul_545 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 | ENSMMUG00000009441 | 1 retrocopy |
retro_mmul_545 ,
|
| Ictidomys tridecemlineatus | ENSSTOG00000023335 | 1 retrocopy |