RetrogeneDB ID:

retro_mmul_1398

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:19:41138213..41138618(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000005891
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.9665
Ensembl ID:ENSMMUG00000003448
Aliases:None
Description:ribosomal protein L26 [Source:RefSeq peptide;Acc:NP_001180495]


Retrocopy-Parental alignment summary:






>retro_mmul_1398
CGAAGCAAGAATCGCAAAAGGCATTTCAATGCACCTTCCCACATTCGCAGGAAGATTATGTCTTCCCCTCTTTCCAAAGA
GCTGAGACAGAAGTACAACGTGCGATCCATGCCCATCCGAAAGGATGATGAAGTTCAGGTTGTACGAGGACACTATAAAG
GTCAGCAAGTTGGCAAAGTAGTCCAGGTTTACAGGAAGAAGTATGTTATCTACATTGAACGGGTGCAGCAGGAAAAGGCT
AATGGCACAACGGTCCACGTAGGCATTCACCCCAGCAAGGTGGTTATCACTAGGCTAAAACTGGACAAAGACTGCAAAAA
GATCCTTGAACGGAAAGCCAAATCTCGCCAAGTAGGAAAGGAAAAGGGCAAATACAAGGAAGAAACAATTGAGAAGATGC
AGGAA

ORF - retro_mmul_1398 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 97.78 %
Parental protein coverage: 93.1 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalRSKNRKRHFNAPSHIRRKIMSSPLSKELRQKYNVRSMPIRKDDEVQVVRGHYKGQQIGKVVQVYRKKYVI
RSKNRKRHFNAPSHIRRKIMSSPLSKELRQKYNVRSMPIRKDDEVQVVRGHYKGQQ.GKVVQVYRKKYVI
RetrocopyRSKNRKRHFNAPSHIRRKIMSSPLSKELRQKYNVRSMPIRKDDEVQVVRGHYKGQQVGKVVQVYRKKYVI
ParentalYIERVQREKANGTTVHVGIHPSKVVITRLKLDKDRKKILERKAKSRQVGKEKGKYKEETIEKMQE
YIERVQ.EKANGTTVHVGIHPSKVVITRLKLDKD.KKILERKAKSRQVGKEKGKYKEETIEKMQE
RetrocopyYIERVQQEKANGTTVHVGIHPSKVVITRLKLDKDCKKILERKAKSRQVGKEKGKYKEETIEKMQE

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 .11 RPM 33 .39 RPM
SRP007412_brain_prefrontal_cortex 0 .24 RPM 118 .76 RPM
SRP007412_cerebellum 0 .39 RPM 33 .90 RPM
SRP007412_heart 0 .12 RPM 41 .57 RPM
SRP007412_kidney 0 .23 RPM 37 .91 RPM
SRP007412_liver 0 .12 RPM 70 .06 RPM
SRP007412_testis 0 .08 RPM 20 .05 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1398 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1398 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1398 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 27 parental genes, and 272 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000024537 retrocopies
Bos taurus ENSBTAG000000123442 retrocopies
Choloepus hoffmanni ENSCHOG0000000470310 retrocopies
Callithrix jacchus ENSCJAG000000143728 retrocopies
Cavia porcellus ENSCPOG0000000131510 retrocopies
Dasypus novemcinctus ENSDNOG000000024703 retrocopies
Equus caballus ENSECAG000000157574 retrocopies
Felis catus ENSFCAG0000001125913 retrocopies
Homo sapiens ENSG0000016197027 retrocopies
Gorilla gorilla ENSGGOG000000239444 retrocopies
Macropus eugenii ENSMEUG000000098917 retrocopies
Myotis lucifugus ENSMLUG000000021761 retrocopy
Macaca mulatta ENSMMUG000000030701 retrocopy
Macaca mulatta ENSMMUG00000003448 22 retrocopies
Monodelphis domestica ENSMODG000000062012 retrocopies
Mustela putorius furoENSMPUG0000000798812 retrocopies
Mus musculus ENSMUSG0000006093821 retrocopies
Nomascus leucogenys ENSNLEG000000099811 retrocopy
Oryctolagus cuniculus ENSOCUG0000000653811 retrocopies
Otolemur garnettii ENSOGAG000000170703 retrocopies
Sorex araneus ENSSARG0000000579813 retrocopies
Sarcophilus harrisii ENSSHAG000000068901 retrocopy
Sus scrofa ENSSSCG000000288509 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000219236 retrocopies
Tupaia belangeri ENSTBEG0000000774953 retrocopies
Tarsius syrichta ENSTSYG0000000148317 retrocopies
Vicugna pacos ENSVPAG000000002794 retrocopies



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