RetrogeneDB ID:

retro_mmul_1055

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:14:15224464..15225075(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.1866
Ensembl ID:ENSMMUG00000003702
Aliases:None
Description:eukaryotic translation initiation factor 4A2 [Source:RefSeq peptide;Acc:NP_001182590]


Retrocopy-Parental alignment summary:






>retro_mmul_1055
ATGTTCATGGTTTTGAGAAGCCTTCAGCTATTCAGCCCAGAGCTATTGTTCCCTGTATTAAAGATCCAAAATGTAATTCT
GGCACTTGGAGACTATATGGGAGCAACTTGTCATGCCTGCATTGGTGGAACAAAGGTTCGAAATAAAATGCAAAAACTGC
AGGCAGAAGCACCACATACTGTTGCTAGTACACCATGAAGAGTGTTTGATATGCTAAACGTAAGATATTTTTCTCCAAGA
TGGATCAAAATGTTTGTTTTGGATGATGCAGATAAAATGTTGAGCTGAGGCTTTAAGGATGAAATCTATGAGATTTTCCA
AAAATTAAATAGAAGTATTCAGGTTGTGTTGCTTTCTGCCACAATGCCAACTGATGTGTTGGAAGTGATAAAAAATTCAT
GAGACATCCAATTTAAATTCTGGTGAAAAAGGAAGAAGGAATCAAACAGTTTTACATTAATGTTGAAAGAGAGGAATGGA
GTTTGACTACACTTTGTGACTTGTACGAGACACTGACTATTATGCAGGCTGTCATTTTTCCCAATGCAAGGCACAAGGTG
GACTGGCTGATTGAGAAAATGCATGCCAGAGACTTCCTAATTTCTGCGGTG

ORF - retro_mmul_1055 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.3 %
Parental protein coverage: 66.67 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMLTVLRSLPLFSRELLFPVLKIQKVILALGDYMGATCHACIGGTNVRNEMQKLQAEAPHIVVGTPGRVFD
M..VLRSL.LFS.ELLFPVLKIQ.VILALGDYMGATCHACIGGT.VRN.MQKLQAEAPH.V..TP.RVFD
RetrocopyMFMVLRSLQLFSPELLFPVLKIQNVILALGDYMGATCHACIGGTKVRNKMQKLQAEAPHTVASTP*RVFD
ParentalMLNRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQKLNTSIQVVLLSATMPTDVLEV-TKKFMRDPIR
MLN.RY.SP.WIKMFVLD.AD.MLS.GFKD.IYEIFQKLN.SIQVVLLSATMPTDVLEV..KKFMR.PI.
RetrocopyMLNVRYFSPRWIKMFVLDDADKMLS*GFKDEIYEIFQKLNRSIQVVLLSATMPTDVLEV<DKKFMRHPI*
ParentalILVKKEELTLEGIKQFYINVEREEWKLDTLCDLYETLTITQAVIFLNTRRKVDWLTEKMHARDFTVSAL
ILVKKEE....GIKQFYINVEREEW.L.TLCDLYETLTI.QAVIF.N.R.KVDWL.EKMHARDF..SA.
RetrocopyILVKKEE----GIKQFYINVEREEWSLTTLCDLYETLTIMQAVIFPNARHKVDWLIEKMHARDFLISAV

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 778 .64 RPM
SRP007412_brain_prefrontal_cortex 0 .08 RPM 563 .01 RPM
SRP007412_cerebellum 0 .00 RPM 774 .51 RPM
SRP007412_heart 0 .00 RPM 298 .90 RPM
SRP007412_kidney 0 .00 RPM 278 .40 RPM
SRP007412_liver 0 .00 RPM 112 .18 RPM
SRP007412_testis 0 .00 RPM 130 .68 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1055 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1055 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1055 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 23 parental genes, and 51 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000147242 retrocopies
Canis familiaris ENSCAFG000000136591 retrocopy
Cavia porcellus ENSCPOG000000111831 retrocopy
Dasypus novemcinctus ENSDNOG000000115025 retrocopies
Echinops telfairi ENSETEG000000185653 retrocopies
Homo sapiens ENSG000001569762 retrocopies
Gorilla gorilla ENSGGOG000000058672 retrocopies
Macropus eugenii ENSMEUG000000117371 retrocopy
Microcebus murinus ENSMICG000000073771 retrocopy
Macaca mulatta ENSMMUG00000003702 2 retrocopies
retro_mmul_1055 , retro_mmul_2450,
Macaca mulatta ENSMMUG000000095901 retrocopy
Macaca mulatta ENSMMUG000000134991 retrocopy
Nomascus leucogenys ENSNLEG000000066331 retrocopy
Oryctolagus cuniculus ENSOCUG000000050113 retrocopies
Otolemur garnettii ENSOGAG000000107292 retrocopies
Ochotona princeps ENSOPRG000000041701 retrocopy
Pongo abelii ENSPPYG000000143842 retrocopies
Pan troglodytes ENSPTRG000000157181 retrocopy
Rattus norvegicus ENSRNOG000000018152 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000126011 retrocopy
Tupaia belangeri ENSTBEG0000000226811 retrocopies
Takifugu rubripes ENSTRUG000000056602 retrocopies
Tarsius syrichta ENSTSYG000000130503 retrocopies



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