RetrogeneDB ID:

retro_mmul_1043

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:13:106140897..106141174(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.17369
Ensembl ID:ENSMMUG00000005006
Aliases:None
Description:40S ribosomal protein S21 [Source:UniProtKB/TrEMBL;Acc:F7AM79]


Retrocopy-Parental alignment summary:






>retro_mmul_1043
ATGCAGAATGATGCTGGTGAGTTTGTGGATCTGTATGTGCCATGGAAATGATCCAATAGCAACTGCAACATCAATGCCAA
GGACCACGAATCCATCCAGATGAACAGGGTCAAGGTTGACAAGGTAGCAGGCAAGTTTAACTGCCATAAAATCTATGCTA
TCTGCAGGATAGGTAAGTCACATGACTCCATTCTCCAATTGGCCAAGGCCGACAGATTGTATTAAAGAACTTTTGACTGA
AGAGAATCATGGATGTGGAATATTTGTCATAAATAAA

ORF - retro_mmul_1043 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.33 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMQNDAGEFVDLYVPRKCSASNRIIGAKDHASIQMNV-GMLTRSQAGLMASLKLMLSAGPFVGWVSQMIPF
MQNDAGEFVDLYVP.K.S.SN..I.AKDH.SIQMN....LTR.QA.L.A..K.MLSA....G.VS.M.PF
RetrocopyMQNDAGEFVDLYVPWK*SNSNCNINAKDHESIQMNR>SRLTR*QASLTA-IKSMLSA----G*VSHMTPF
ParentalFDWPR-RHRLKELLTGENHGSGIFVINK
..WPR.....KELLT.ENHG.GIFVINK
RetrocopySNWPRPTDCIKELLTEENHGCGIFVINK

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 35 .30 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 149 .85 RPM
SRP007412_cerebellum 0 .00 RPM 33 .06 RPM
SRP007412_heart 0 .00 RPM 62 .30 RPM
SRP007412_kidney 0 .00 RPM 49 .76 RPM
SRP007412_liver 0 .00 RPM 228 .60 RPM
SRP007412_testis 0 .00 RPM 37 .81 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1043 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1043 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1043 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 ENSAMEG000000173992 retrocopies
Bos taurus ENSBTAG000000207952 retrocopies
Canis familiaris ENSCAFG000000126764 retrocopies
Callithrix jacchus ENSCJAG000000141955 retrocopies
Erinaceus europaeus ENSEEUG000000045732 retrocopies
Gorilla gorilla ENSGGOG000000237457 retrocopies
Latimeria chalumnae ENSLACG000000127531 retrocopy
Loxodonta africana ENSLAFG000000157934 retrocopies
Macropus eugenii ENSMEUG000000158322 retrocopies
Microcebus murinus ENSMICG000000129975 retrocopies
Macaca mulatta ENSMMUG00000005006 8 retrocopies
Ochotona princeps ENSOPRG000000009371 retrocopy
Pongo abelii ENSPPYG000000112058 retrocopies
Pan troglodytes ENSPTRG000000137081 retrocopy
Pteropus vampyrus ENSPVAG000000035482 retrocopies
Rattus norvegicus ENSRNOG000000063252 retrocopies
Sus scrofa ENSSSCG000000218251 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000010295 retrocopies
Tarsius syrichta ENSTSYG000000070615 retrocopies
Tursiops truncatus ENSTTRG000000111056 retrocopies



Copyright © RetrogeneDB 2014-2017