RetrogeneDB ID:

retro_mmul_1892

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:5:77404074..77404349(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.16850
Ensembl ID:ENSMMUG00000019544
Aliases:None
Description:60S ribosomal protein L37a [Source:RefSeq peptide;Acc:NP_001252654]


Retrocopy-Parental alignment summary:






>retro_mmul_1892
ATGATTAAAGCTAATAAGAAAGTCAGAATTATCAATAAATACAGGACCCACTATGGTACCTCCCTCCAGAAAATAGTGAA
GAAAATTTTAATTTACCAGCATGCCAAGGAGACTTGCTCCTTCTGTGGCAAAATCAAGATAAAGAGACAAACTGTGGGAA
CCTGGCACTGTGGTTCCTGCATGGAAATGGTAGCTGGTGGTGCCCGGACCTATAACACCACTTCTACTGTCATGGTAAAG
TTGCCATCAGAATACTGAAGAAATTGGAAGACCAA

ORF - retro_mmul_1892 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.82 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMAKRTKKVGIVGKYGTRYGASLRKMVKKIEISQHAKYTCSFCGKTKMKRRAVGIWHCGSCMKTVAGGAWT
M.K..KKV.I..KY.T.YG.SL.K.VKKI.I.QHAK.TCSFCGK.K.KR..VG.WHCGSCM..VAGGA.T
RetrocopyMIKANKKVRIINKYRTHYGTSLQKIVKKILIYQHAKETCSFCGKIKIKRQTVGTWHCGSCMEMVAGGART
ParentalYNTTSAVTV-KSAIRRLKELKDQ
YNTTS.V.V.K.AIR.LK.L.DQ
RetrocopyYNTTSTVMV<KVAIRILKKLEDQ

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 18 .15 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 95 .20 RPM
SRP007412_cerebellum 0 .00 RPM 22 .79 RPM
SRP007412_heart 0 .00 RPM 35 .86 RPM
SRP007412_kidney 0 .00 RPM 24 .76 RPM
SRP007412_liver 0 .00 RPM 51 .18 RPM
SRP007412_testis 0 .00 RPM 24 .58 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_1892 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_1892 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1892 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 9 parental genes, and 78 retrocopies.

Species Parental gene accession Retrocopies number
Echinops telfairi ENSETEG0000001435234 retrocopies
Gorilla gorilla ENSGGOG000000148275 retrocopies
Latimeria chalumnae ENSLACG000000115781 retrocopy
Macaca mulatta ENSMMUG00000019544 11 retrocopies
Monodelphis domestica ENSMODG000000254859 retrocopies
Procavia capensis ENSPCAG000000068915 retrocopies
Petromyzon marinus ENSPMAG000000000011 retrocopy
Pongo abelii ENSPPYG000000258781 retrocopy
Tarsius syrichta ENSTSYG0000000425811 retrocopies



Copyright © RetrogeneDB 2014-2017