RetrogeneDB ID:

retro_mmul_316

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:1099214168923:3093..3570(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000005866
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.4381
Ensembl ID:ENSMMUG00000019016
Aliases:CFL1, cofilin-1
Description:cofilin-1 [Source:RefSeq peptide;Acc:NP_001253534]


Retrocopy-Parental alignment summary:






>retro_mmul_316
GTGTGGCTGTGTGATGGTGTCATGAACATGTTCAACGGCATGAAGGTGCGTAAGTCTTCAATGCCAGAGGAGGTGAAGAA
GCACAAGAAGGCAGTGCTCTTCTGCCTTGGTGAGGACAAGAAGAACGTCATCAAGAAGATCCTGGTGGGCAATGTGGGCC
AGACTATCGACAACCCCTGTGCCACCTTTGTCAGGATGCTGCCAGATAAGGACTGCCACTACGCCCTCTATGACACAGCC
TACAGGACCAAGGAGAGCAAGAAGGAGGACCTGGTGTTTATCTTCTGGGTCCCTGAGTCTGCGCCCCTTAACAGCAAAAT
GACCTATTCCAGCTCCAAGGACGCCATCAAGAAGAACCTGACAGGGGTCAAGCATGAATTACACGCAAACTGCTATGAGG
AGGTCAAGGACCGCTGCACCCTGGCAGAGAAGCTGGGGGGCAGTGCGGTCATCTCCCTGGAGGACAAGCCTTTGTGA

ORF - retro_mmul_316 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.88 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMKVRKSSTPEEVKKRKKAVLFCLSEDKKNIILEEGKEILVGDVGQTVDDPYATFVKMLPDKDCRYALYDA
MKVRKSS.PEEVKK.KKAVLFCL.EDKKN.I....K.ILVG.VGQT.D.P.ATFV.MLPDKDC.YALYD.
RetrocopyMKVRKSSMPEEVKKHKKAVLFCLGEDKKNVI----KKILVGNVGQTIDNPCATFVRMLPDKDCHYALYDT
ParentalTYETKESKKEDLVFIFWAPECAPLKSKMIYASSKDAIKKKLTGIKHELQANCYEEVKDRCTLAEKLGGSA
.Y.TKESKKEDLVFIFW.PE.APL.SKM.Y.SSKDAIKK.LTG.KHEL.ANCYEEVKDRCTLAEKLGGSA
RetrocopyAYRTKESKKEDLVFIFWVPESAPLNSKMTYSSSKDAIKKNLTGVKHELHANCYEEVKDRCTLAEKLGGSA
ParentalVISLEGKPL
VISLE.KPL
RetrocopyVISLEDKPL

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 .78 RPM 229 .48 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 401 .89 RPM
SRP007412_cerebellum 0 .19 RPM 146 .26 RPM
SRP007412_heart 0 .29 RPM 71 .96 RPM
SRP007412_kidney 0 .70 RPM 130 .28 RPM
SRP007412_liver 0 .12 RPM 123 .58 RPM
SRP007412_testis 0 .00 RPM 82 .13 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_316 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_316 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_316 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 20 parental genes, and 73 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000173342 retrocopies
Canis familiaris ENSCAFG000000249556 retrocopies
Callithrix jacchus ENSCJAG000000019161 retrocopy
Equus caballus ENSECAG000000199001 retrocopy
Felis catus ENSFCAG000000132723 retrocopies
Homo sapiens ENSG000001727576 retrocopies
Gorilla gorilla ENSGGOG000000231835 retrocopies
Myotis lucifugus ENSMLUG000000246856 retrocopies
Macaca mulatta ENSMMUG000000137861 retrocopy
Macaca mulatta ENSMMUG00000019016 5 retrocopies
Mustela putorius furoENSMPUG000000115022 retrocopies
Mus musculus ENSMUSG000000562016 retrocopies
Nomascus leucogenys ENSNLEG000000058525 retrocopies
Oryctolagus cuniculus ENSOCUG000000256044 retrocopies
Pongo abelii ENSPPYG000000030475 retrocopies
Pan troglodytes ENSPTRG000000038955 retrocopies
Rattus norvegicus ENSRNOG000000206602 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000279684 retrocopies
Tupaia belangeri ENSTBEG000000167512 retrocopies
Tursiops truncatus ENSTTRG000000169312 retrocopies



Copyright © RetrogeneDB 2014-2017