RetrogeneDB ID:

retro_mmul_187

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:12:54484537..54485365(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000011937
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.4980
Ensembl ID:ENSMMUG00000012989
Aliases:HNRNPA1, HNRPA1, hnRNP A1
Description:None


Retrocopy-Parental alignment summary:






>retro_mmul_187
GTAGTGGAACCAAAGAGAGCTGTTTCTAGAGAGGATTCTGTAAAGCCTGGTGCCCATCTAACAGTGAAGAAAATTTTTGT
TGGTGGTATTAAAGAAGATACAGAAGAATATAATTTGAGAGACTACTTTGAAAAGTATGGCAAAATTGAAACCATAGAAG
TTATGGAAGACAGGCAGAGTGGAAAAAAGAGAGGATTTGCTTTTGTAACTTTTGATGATCATGATACAGTTGATAAAATT
GTTGTTCAGAAATACCACACTATTAATGGGCATAATTGTGAAGTGAAAAAGGCCCTTTCTAAACAAGAGATGCAGTCTGC
TGGATCACAGAGAGGTCGTGGAGGTGGATCTGGCAATTTTATGGGTCGTGGAGGAAACTTTGGAGGTGGTGGAGGTAATT
TTGGCCGTGGTGGAAACCTTGGTGGAAGAGGAGGCTATGGTGGTGGAGGTGGTGGTAGCAGAGGTAGTTATGGTGGAGGT
GATGGTGGATATAATGGATTTGGAGGTGATGGTGGCAACTATGGCGGTGGTCCTGGTTATAGTAGTAGAGGGGGCTATGG
TGGTGGTGGACCAGGATATGGAAACCAAGGTGGTGGATATGGTGGCAGTGGTGGAGGATATGATGGTTACAATGAAGGAG
GAAATTTTGGCGGTAACTATGGTGGTGGTGGGAACTATAATGATTTTGGAAATTATAGTGGACAACAGCAGTCAAATTAT
GGACCCATGAAAGGGGGCAGTTTTGGTGGAAGAAGCTCGGGCAGTCCCTATGGTGGTGGTTATGGATCTGGTGGTGGAAG
TGGTGGATATGGTAGCAGAAGGTTCTAA

ORF - retro_mmul_187 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.04 %
Parental protein coverage: 70.7 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVVEPKRAVSREDSQRPGAHLTVKKIFVGGIKEDTEEHHLRDYFEQYGKIEVIEIMTDRGSGKKRGFAFVT
VVEPKRAVSREDS..PGAHLTVKKIFVGGIKEDTEE..LRDYFE.YGKIE.IE.M.DR.SGKKRGFAFVT
RetrocopyVVEPKRAVSREDSVKPGAHLTVKKIFVGGIKEDTEEYNLRDYFEKYGKIETIEVMEDRQSGKKRGFAFVT
ParentalFDDHDSVDKIVIQKYHTVNGHNCEVRKALSKQEMASASSSQRGRSGSGNFGGGRGGGF-GGNDNFGRGGN
FDDHD.VDKIV.QKYHT.NGHNCEV.KALSKQEM.SA.S......GSGNF..GRGG.F.GG..NFGRGGN
RetrocopyFDDHDTVDKIVVQKYHTINGHNCEVKKALSKQEMQSAGSQRGRGGGSGNF-MGRGGNFGGGGGNFGRGGN
ParentalFSGRGGFGGSRGG--GGYGGSGDGYNGFGNDGGYGGGGPGYSGGSRGYGSGGQGYGNQGSGYGGS-GSYD
..GRGG.GG..GG..G.YGG...GYNGFG.DGG..GGGPGYS....GYG.GG.GYGNQG.GYGGS.G.YD
RetrocopyLGGRGGYGGGGGGSRGSYGGGDGGYNGFGGDGGNYGGGPGYSSRG-GYGGGGPGYGNQGGGYGGSGGGYD
ParentalSYNNGGGGGFGGGSGSNFGGGGSYNDFGNYNNQSSNFGPMKGGNFGGRSSGPYGGGG
.YN.GG..G...G.G.N....G.Y......N......G...G...G....G.YG.GG
RetrocopyGYNEGGNFGGNYGGGGNYNDFGNYSGQQQSNYGPMKGGSFGGRSSGSPYGGGYGSGG

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 14 .12 RPM 72 .61 RPM
SRP007412_brain_prefrontal_cortex 15 .87 RPM 144 .14 RPM
SRP007412_cerebellum 16 .79 RPM 88 .27 RPM
SRP007412_heart 24 .26 RPM 141 .68 RPM
SRP007412_kidney 14 .79 RPM 70 .66 RPM
SRP007412_liver 18 .68 RPM 68 .12 RPM
SRP007412_testis 77 .65 RPM 87 .83 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_187 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_187 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_187 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 9 parental genes, and 40 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG0000000658016 retrocopies
Dasypus novemcinctus ENSDNOG000000092287 retrocopies
Macaca mulatta ENSMMUG000000018584 retrocopies
Macaca mulatta ENSMMUG00000012989 5 retrocopies
Mustela putorius furoENSMPUG000000046201 retrocopy
Mustela putorius furoENSMPUG000000057352 retrocopies
Oryctolagus cuniculus ENSOCUG000000133501 retrocopy
Otolemur garnettii ENSOGAG000000297073 retrocopies
Oreochromis niloticus ENSONIG000000122481 retrocopy



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