RetrogeneDB ID:

retro_mmul_227

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:X:95013553..95014201(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000032398
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:RAB5A
Ensembl ID:ENSMMUG00000006992
Aliases:None
Description:ras-related protein Rab-5A [Source:RefSeq peptide;Acc:NP_001248077]


Retrocopy-Parental alignment summary:






>retro_mmul_227
ATGGCTAATCGAGGTGCAACAAGACCCAACGGGCCAAATACTGGAAATAAAATATGCCAGTTCAAACTAGTACTTCTGGG
AGAGTCTGCTGTTGGCAAATCAAGCCTAGTGCTTCGTTTTGTGAAAGGCCAATTTCATGAATTTCAAGAGAGTACCATTG
GGGCTGCTTTTCTAACCCAAACTGTATGTCTTGATGACACTACAGTAAAGTTTGAAATACGGGATACAGCTGGTCAAGAA
CGATACCATAGCCTAGCACCAATGTACTACAGAGGAGCACAAGCAGTCATAGTTGTATATGATATCACAAATGAGGAGTC
CTTTGCAAGAGCAAAAAATTGGGTTAAAGAACTTCAGAGGCAAGCAAGTCCTAACACTGTAATAGCTTTAGCAGGAAACA
AGGCCAACCTAGCAAATAAAAGAGCAGTAAATTTCCAGGAAGCACAGTCCTTTGCAGATGACAATAGTTTATTATTCATG
GAGACATCAGCTAAAACATCAATGGATGTAAATGAAATATTCATGGCAATAGCTAAAAAATTGCCAAAGGATGAACCACA
AAATCCAGGAGCAAATTCTGCCAGAGGAAGAGGAGTAGACCTCACCGAACCCACACGACCAACCAGGAGTCAGTGTTGTA
GTAACTAA

ORF - retro_mmul_227 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.35 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMANRGATRPNGPNTGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVK
MANRGATRPNGPNTGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVK
RetrocopyMANRGATRPNGPNTGNKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVK
ParentalFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANK
FEI.DTAGQERYHSLAPMYYRGAQA.IVVYDITNEESFARAKNWVKELQRQASPN.VIAL.GNKA.LANK
RetrocopyFEIRDTAGQERYHSLAPMYYRGAQAVIVVYDITNEESFARAKNWVKELQRQASPNTVIALAGNKANLANK
ParentalRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPKNEPQNPGANSARGRGVDLTEPTQPTRS
RAV.FQEAQS.ADDNSLLFMETSAKTSM.VNEIFMAIAKKLPK.EPQNPGANSARGRGVDLTEPT.PTRS
RetrocopyRAVNFQEAQSFADDNSLLFMETSAKTSMDVNEIFMAIAKKLPKDEPQNPGANSARGRGVDLTEPTRPTRS
ParentalQCCSN
QCCSN
RetrocopyQCCSN

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 61 .63 RPM
SRP007412_brain_prefrontal_cortex 0 .48 RPM 31 .65 RPM
SRP007412_cerebellum 0 .00 RPM 45 .65 RPM
SRP007412_heart 0 .12 RPM 21 .14 RPM
SRP007412_kidney 0 .00 RPM 26 .64 RPM
SRP007412_liver 0 .00 RPM 11 .36 RPM
SRP007412_testis 0 .04 RPM 22 .65 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_227 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_227 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_227 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 21 parental genes, and 28 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000009541 retrocopy
Bos taurus ENSBTAG000000463851 retrocopy
Callithrix jacchus ENSCJAG000000037311 retrocopy
Cavia porcellus ENSCPOG000000053222 retrocopies
Dipodomys ordii ENSDORG000000124291 retrocopy
Felis catus ENSFCAG000000044552 retrocopies
Homo sapiens ENSG000001445661 retrocopy
Gorilla gorilla ENSGGOG000000159811 retrocopy
Loxodonta africana ENSLAFG000000083211 retrocopy
Macaca mulatta ENSMMUG000000056921 retrocopy
Macaca mulatta ENSMMUG00000006992 2 retrocopies
retro_mmul_227 , retro_mmul_839,
Macaca mulatta ENSMMUG000000147611 retrocopy
Monodelphis domestica ENSMODG000000147932 retrocopies
Mus musculus ENSMUSG000000178311 retrocopy
Nomascus leucogenys ENSNLEG000000034341 retrocopy
Oryctolagus cuniculus ENSOCUG000000122001 retrocopy
Pongo abelii ENSPPYG000000140742 retrocopies
Pan troglodytes ENSPTRG000000146821 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000262291 retrocopy
Tarsius syrichta ENSTSYG000000076423 retrocopies
Tursiops truncatus ENSTTRG000000013741 retrocopy



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