RetrogeneDB ID:

retro_mmul_502

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:1:67756816..67757647(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MMU.2873
Ensembl ID:ENSMMUG00000000439
Aliases:None
Description:solute carrier family 2, facilitated glucose transporter member 3 [Source:RefSeq peptide;Acc:NP_001248462]


Retrocopy-Parental alignment summary:






>retro_mmul_502
GGGACACAGAAGGTCACTCCATCTCTGATCTTCGCCATCACAATTGCTACAATTGGCTCTTTCCAGTTTGGCTATAACAC
TGGGATCATCAGTGCTCCTGAGACTATCGTAAGGGAATTTGTCAACACTTTGAAGGATAAGGCAAATACCCCTCCCTCTG
AGATGTTGCGCTTGTCCCTCTGGTCCTTGTCTTTGGCCATATTCTCCATTGGTGGTATGATTGGCTGCTCTTCCGTTGGA
CTCTTTGTCAACAGCTTTGACAGGCGTAATTCAATGCTTACCATCAATCTGTTGGCTGTCACTGGTGGCTGCCTTATGCG
ATTGTGTAAAGTAGCTGAGTTGGTTGAAATGCTGATCCTGGCCCACTTGGTTATTGGCTTCTTCTGCAGACTCTGCACAG
GTTTTGTGCCCACGTACATTGGAGAGATCTCGCCTACTACCCTGCGAGGTGTCTTTGGCACTCTCAACCAGCTGGGCATT
GTTGTTGGAATTCTGGTGACCCAGATCTTTGGTCTGAAATTCATCCTGGGGTCTGAAGAGCTATGGCCCATGCAATTAGG
CTTTCCCATCTCTCCTGCTATGCTGTAAAGTGCAGCCCTTCCATTTTGCCCTGAAAGTACCAGATTCTTGCTCATTAACA
GAAAAGAAGAGGAGAATGCTAAGGAGATCCTCCAATGGTTGTGGGGCACCCAGGATGTATCCCAAGACATCCAGGAGATG
AAAGATGAGAGTGCAAGGATGGCACAAGAAAAGCAAGTCACTATGCTGCAGCTCTTTAGAGTATCCAGCTACCGACAGCC
CATCATCATTTCCATCATGCTCCAGCTCTCT

ORF - retro_mmul_502 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.65 %
Parental protein coverage: 56.05 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGTQKVTPALIFAITVATIGSFQFGYNTGVINAPEKIIKEFINKSLTEKANIPPSEVLLTSLWSLSVAIFS
GTQKVTP.LIFAIT.ATIGSFQFGYNTG.I.APE.I..EF.N..L..KAN.PPSE.L..SLWSLS.AIFS
RetrocopyGTQKVTPSLIFAITIATIGSFQFGYNTGIISAPETIVREFVN-TLKDKANTPPSEMLRLSLWSLSLAIFS
ParentalVGGMIGSFSVGLFVNRFGRRNSMLIVNLLAVTGGCLMGLCKVAKSVEMLILGRLVIGLFCGLCTGFVPMY
.GGMIG..SVGLFVN.F.RRNSML..NLLAVTGGCLM.LCKVA..VEMLIL..LVIG.FC.LCTGFVP.Y
RetrocopyIGGMIGCSSVGLFVNSFDRRNSMLTINLLAVTGGCLMRLCKVAELVEMLILAHLVIGFFCRLCTGFVPTY
ParentalIGEISPTALRGAFGTLNQLGIVIGILVAQIFGLEFILGSEELWPLLLGFTILPAILQSATLPFCPESPRF
IGEISPT.LRG.FGTLNQLGIV.GILV.QIFGL.FILGSEELWP..LGF.I.PA.L.SA.LPFCPES.RF
RetrocopyIGEISPTTLRGVFGTLNQLGIVVGILVTQIFGLKFILGSEELWPMQLGFPISPAML*SAALPFCPESTRF
ParentalLLINRKEEENAKQILQRLWGTQDVSQDIQEMKDESARMSQEKQVTVLELFRVSSYRQPIIISIVLQLS
LLINRKEEENAK.ILQ.LWGTQDVSQDIQEMKDESARM.QEKQVT.L.LFRVSSYRQPIIISI.LQLS
RetrocopyLLINRKEEENAKEILQWLWGTQDVSQDIQEMKDESARMAQEKQVTMLQLFRVSSYRQPIIISIMLQLS

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 .45 RPM 51 .32 RPM
SRP007412_brain_prefrontal_cortex 0 .08 RPM 70 .21 RPM
SRP007412_cerebellum 0 .45 RPM 51 .60 RPM
SRP007412_heart 0 .00 RPM 18 .25 RPM
SRP007412_kidney 0 .12 RPM 6 .57 RPM
SRP007412_liver 0 .12 RPM 4 .12 RPM
SRP007412_testis 2 .04 RPM 464 .08 RPM
Macaca mulatta was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmul_502 retrocopy.
Macaca mulatta was not studied using FANTOM5 data.
retro_mmul_502 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_502 has 4 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_401
Pan troglodytes retro_ptro_307
Gorilla gorilla retro_ggor_398
Pongo abelii retro_pabe_315

Parental genes homology:
Parental genes homology involve 15 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000045562 retrocopies
Callithrix jacchus ENSCJAG000000189881 retrocopy
Cavia porcellus ENSCPOG000000030741 retrocopy
Cavia porcellus ENSCPOG000000098341 retrocopy
Cavia porcellus ENSCPOG000000112951 retrocopy
Felis catus ENSFCAG000000016251 retrocopy
Homo sapiens ENSG000000598042 retrocopies
Gorilla gorilla ENSGGOG000000168131 retrocopy
Macaca mulatta ENSMMUG00000000439 2 retrocopies
retro_mmul_2301, retro_mmul_502 ,
Nomascus leucogenys ENSNLEG000000269032 retrocopies
Oryctolagus cuniculus ENSOCUG000000085751 retrocopy
Pongo abelii ENSPPYG000000042341 retrocopy
Pongo abelii ENSPPYG000000042351 retrocopy
Pan troglodytes ENSPTRG000000046241 retrocopy
Pan troglodytes ENSPTRG000000046261 retrocopy



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