RetrogeneDB ID:

retro_mmul_1614

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:3:76451356..76452490(+)
Located in intron of:ENSMMUG00000013690
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:GNL2
Ensembl ID:ENSMMUG00000008419
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mmul_1614
ATCTGGAAATACATTACCTTGATATATTGGTTATGCTTGATTGACTGTCCAGGTTTGGTTTACTCTTCCAAGGACTTGAA
GACAGACATTGTACTAAAAGGAGCTGTTTAAGTAGGAAAAATTAAGGCCCCTGAAGACTGTATTGATGTATTTGAACAAG
TAAAGCAAGAATATGTCAACAAGACATAAAAGATTAATTATTGGGAGAATGCTGAGGACTTTATTGAGAAGCTAACTTTC
TGGACTGGAAAGTTACTGAAGGGTGGAGTAACTTACTTACTTACTGACTGTGGGTGGATAGTCCTCAATGACTGGCTGAG
GAGGCTGGATTCCCTTCTTTGTCAAGCTGCCTAATAGAGAGCCCCTTGTGGGCCCCCAGCTTTCACCTTCCTAGTCTGTG
AAAGTTGCCACAGAAGCAACCCAGAACAATCCAGAAGAGGAAGTGACAGAAGGAATACCAAAACTGTAGGTGAAGTGACA
GAATCTGTGATTGAAAAGAAAAAGAAGAGAATAGTCATTGGGATGCTAACTCAGAGATGCAACAGATTCTTGTGCATGGG
TTCAGCAACTTTGGCAAACCCAATGTGGTGCCTCAGTCTTCTGGGGATGACCCAGTTCCTGTGGATATGTCATATCTGGA
GAAAGAGCTTGAGAGCTTTTCTACTGAAGAAGAGGAGCAGAAGCAGGAGATGATGAAGAAGAGTTTTACTAGGAATCTGA
GGAAGGACATATGGAAAAATCACACCAAAGCCATTATGAAAGCTCTAGATGAGAATATTGCTAAATATCAGAAGTTTTTA
GACAAAGTTAAAGCCAAAAAGTTTTCAGGAGTCAGAATATCCAAGGGACTAAGTGAAAAACATGAAGAGCAGAGAAAAAT
ATCTGAAGAAGATGTAGATGATGCACAGTATCTACCAAAAAAGGAAATAAGCAGAAGTCACAGAGGGAAGAGGAACATTC
AAGCAAAACTTGCAGGATGCTTACATCTAAGGAATGGAAGTGAGCAGTACAGCAGCAACAATCCGAAAACATTTGTGTGC
ACTACTGTGAAACACACAATGTGAAAAATACAAACGAGAAACAAAAGACGACCAGTGACTCAGAGGGACTGAAGTACAAA
CACAAAAATTCAGA

ORF - retro_mmul_1614 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 55.58 %
Parental protein coverage: 52.19 %
Number of stop codons detected: 5
Number of frameshifts detected 7


Retrocopy - Parental Gene Alignment:

ParentalVWQYITLMRRIFLIDCPGVVYPSEDSETDIVLKGVVQVEKIKSPEDHIGAVLERAKPEYISKTYKIDSWE
.W.YITL.....LIDCPG.VY.S.D..TDIVLKG.V.V.KIK.PED.I..V.E..K.EY..KT.KI..WE
RetrocopyIWKYITLIYWLCLIDCPGLVYSSKDLKTDIVLKGAV*VGKIKAPEDCID-VFEQVKQEYVNKT*KINYWE
ParentalNAEDFLEKLAFRTGKLLKGGEPDLQT-VGKMVLNDWQR-GRIPFFV----KPPNAEPPVAPQLPPSPSLE
NAEDF.EKL.F.TGKLLKGG...L.T..G..VLNDW.R.G.IPFFV......P...P...P........E
RetrocopyNAEDFIEKLTFWTGKLLKGGVTYLLTDCGWIVLNDWLR>GWIPFFVKLPNREPLVGPQLSPS*SVKVATE
ParentalVV-PEAARKNPGKEVTETAGEGSESVIKE-ETEENSHCDTNTEMQQILTRVRQNFGKINVVPQFSGDDLV
...PE..R.......T.T.GE..ESVI...E.EENSH.D.N.EMQQIL.....NFGK.NVVPQ.SGDD.V
RetrocopyAT<PEQSRRGSDRRNTKTVGEVTESVIEK<EKEENSHWDANSEMQQILVHGFSNFGKPNVVPQSSGDDPV
ParentalPVEVSDLEEELESFSDEEEEEQEQQR-DDVEESSSEPEEEHVG-NDTKAVIKALDEKIAKYQKFLDKAKA
PV..S.LE.ELESFS.EEE.....Q..DD.EE...E.EE.H...N.TKA..KALDE.IAKYQKFLDK.KA
RetrocopyPVDMSYLEKELESFSTEEE--EQKQE<DDEEEFY*ESEEGHME>NHTKAIMKALDENIAKYQKFLDKVKA
ParentalKKFSAVRISKGLSEKIFAKPEEQRKTLEEHVDDTAPSKKGKKRKAQR-EEEQEHSNKAPRALTSKERRRA
KKFS.VRISKGLSEK.....E......E..VDD.....K.......R..EE..HS.K..R.LTSKE...A
RetrocopyKKFSGVRISKGLSEK---HEEQRKISEED-VDDAQYLPKKEISRSHR<REEE-HSSKTCRMLTSKEWK*A
ParentalVRQQRPKKVGVRYYETHNVKNRNRNKKKTNDSEGQKHKRK-KFR
V.QQ......V.Y.ETHNVKN.N...K.T.DSEG.K.K.K.KFR
RetrocopyVQQQQSENICVHYCETHNVKNTNEKQKTTSDSEGLKYKHK<KFR

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(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 26 .78 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 19 .36 RPM
SRP007412_cerebellum 0 .32 RPM 25 .77 RPM
SRP007412_heart 0 .00 RPM 29 .80 RPM
SRP007412_kidney 0 .12 RPM 28 .64 RPM
SRP007412_liver 0 .04 RPM 10 .45 RPM
SRP007412_testis 0 .41 RPM 73 .24 RPM

ChIP-Seq - click to see more details

Macaca mulatta was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmul_1614 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_1614 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_1614 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Macaca mulatta ENSMMUG00000008419 1 retrocopy
retro_mmul_1614 ,




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