RetrogeneDB - Retrocopy retro_mmul

                        
>retro_mmul_463
CGAAGCAAAACACGTGCAAGAATTTTTAAACGGAGAAATGTGGAGCTGATTAACGAAGAAGTTGCCATGTTGGATAGTCT

TCTCATGGACTCCTAGGTGAGCTCTACTACTAGGGAGAGTGTGATCACAAGAGAGATGGTGGAGATGCTCTTTCCTGGTG

ATTCTGACCTGCAGTTAGCAACCACACAGAAATTCTGGAAACTGCTCTCCAAAGAGCCTAGTCCTCCAACAGATGAAGTT

ATCAACACTCCAAGAGTGGTGGATCGGTTTGTGGAGTTTCTGAAGAGAAATGAGAATTGTACATTATATTTTGAAGCTGC

CTGGGCTCTAACAAATATTGCCTCTTGGAACCTCTCAGTAGACCAAAATTGTCATTGAAGCTGGGGTTGTCCACATTTTT

ACAGAGCTGCTTAATTCAGACTTCAGGGATGTTCAGGAACAGGCAGTCTGGACACTGGGAAACATAGCTGGAGATAGCTC

TGTTTGCCAAGATTACGTCTTGAACTGTTCCATCCTTAATCCTTTGTTAATATTCCTTACCGAGTCCACACGACTGACGA

CGACACGGAATGCAGTCTGGACCCTGTCAAATCTCTGCCAAGGGAAGAGCCCACCCCCAGAGGTTGCAAAGGTCTCTCCT

TGTTTGCCTGCGCTGTCTCGCCTACTCTTCAGCAGCGACTCGGACTTGCTGGCAAAGCTTTCTGGGCCCTTTCTTACCTG

TCTGATGGCCCCAATGAGAAGATCCAGGCAGTCATAGACTCTGCAGTCTTCCAGAGATTGGTAGAGCTGCTGATGCACAA

TGATTACAAAATGGCTTCTCCTGCTCTGAGAGTCATGGGTGACATCGTCACTGGGGATGACATCCAGATCCAGGTCATTC

TTAACTGTTCAGCGCCACCTTACCTTCTCCACTTGCTGAGGAGTCCCAAGGAGTCAATCCGGAAGGAAGCTTGCTGGGCT

ATTTCAAATGTTACTGCTGGC

ORF - retro_mmul_463 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	85.11 %
Parental protein coverage:	61.01 %
Number of stop codons detected:	2
Number of frameshifts detected:	2

Retrocopy - Parental Gene Alignment:

                                ParentalKQKREQQLFKRRNVELINEEAAMFDSLLMDSYVSSTTGESVITREMVEMLFSDDSDLQLATTQKFRKLLS
..K.....FKRRNVELINEE.AM.DSLLMDS.VSSTT.ESVITREMVEMLF..DSDLQLATTQKF.KLLS
RetrocopyRSKTRARIFKRRNVELINEEVAMLDSLLMDS*VSSTTRESVITREMVEMLFPGDSDLQLATTQKFWKLLS
ParentalKEPSPPIDEVINTPRVVDRFVEFLKRNENCTLQFEAAWALTNIAS-GTSQQTKIVIEAGAVPIFIELLNS
KEPSPP.DEVINTPRVVDRFVEFLKRNENCTL.FEAAWALTNIAS.GTSQ.TKIVIEAG.V.IF.ELLNS
RetrocopyKEPSPPTDEVINTPRVVDRFVEFLKRNENCTLYFEAAWALTNIAS>GTSQ*TKIVIEAGVVHIFTELLNS
ParentalDFEDVQEQAVWALGNIAGDSSVCRDYVLNCSILNPLLTLLTKSTRLTMTRNAVWALSNLCRGKNPPPEFA
DF.DVQEQAVW.LGNIAGDSSVC.DYVLNCSILNPLL..LT.STRLT.TRNAVW.LSNLC.GK.PPPE.A
RetrocopyDFRDVQEQAVWTLGNIAGDSSVCQDYVLNCSILNPLLIFLTESTRLTTTRNAVWTLSNLCQGKSPPPEVA
ParentalKVSPCLPVLSRLLFSSDSDLLA-DACWALSYLSDGPNEKIQAVIDSGVCRRLVELLMHNDYKVASPALRA
KVSPCLP.LSRLLFSSDSDLLA..A.WALSYLSDGPNEKIQAVIDS.V..RLVELLMHNDYK.ASPALR.
RetrocopyKVSPCLPALSRLLFSSDSDLLA<KAFWALSYLSDGPNEKIQAVIDSAVFQRLVELLMHNDYKMASPALRV
ParentalVGNIVTGDDIQTQVILNCSALPCLLHLLSSPKESIRKEACWTISNITAG
.G.IVTGDDIQ.QVILNCSA.P.LLHLL.SPKESIRKEACW.ISN.TAG
RetrocopyMGDIVTGDDIQIQVILNCSAPPYLLHLLRSPKESIRKEACWAISNVTAG

                            

                            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 .00 RPM	50 .20 RPM
SRP007412_brain_prefrontal_cortex	0 .00 RPM	52 .83 RPM
SRP007412_cerebellum	0 .06 RPM	51 .60 RPM
SRP007412_heart	0 .06 RPM	32 .45 RPM
SRP007412_kidney	0 .00 RPM	39 .44 RPM
SRP007412_liver	0 .00 RPM	13 .74 RPM
SRP007412_testis	0 .04 RPM	91 .97 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_463 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_463 was not experimentally validated.

Retrocopy orthology:

Retrocopy retro_mmul_463 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000001434	1 retrocopy	retro_mmur_1347,
Macaca mulatta	ENSMMUG00000008455	1 retrocopy	retro_mmul_463 ,
Macaca mulatta	ENSMMUG00000018256	3 retrocopies	retro_mmul_1140, retro_mmul_1635, retro_mmul_1947,
Sorex araneus	ENSSARG00000008510	1 retrocopy	retro_sara_521,

	RetrogeneDB ID:	retro_mmul_463
Retrocopy location	Organism:	*Rhesus macaque (Macaca mulatta)*
	Coordinates:	1:225810626..225811607(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	MMU.640
	Ensembl ID:	ENSMMUG00000008455
	Aliases:	None
	Description:	importin subunit alpha-7 [Source:RefSeq peptide;Acc:NP_001253921]

Parental	KQKREQQLFKRRNVELINEEAAMFDSLLMDSYVSSTTGESVITREMVEMLFSDDSDLQLATTQKFRKLLS
	..K.....FKRRNVELINEE.AM.DSLLMDS.VSSTT.ESVITREMVEMLF..DSDLQLATTQKF.KLLS
Retrocopy	RSKTRARIFKRRNVELINEEVAMLDSLLMDS*VSSTTRESVITREMVEMLFPGDSDLQLATTQKFWKLLS

Parental	KEPSPPIDEVINTPRVVDRFVEFLKRNENCTLQFEAAWALTNIAS-GTSQQTKIVIEAGAVPIFIELLNS
	KEPSPP.DEVINTPRVVDRFVEFLKRNENCTL.FEAAWALTNIAS.GTSQ.TKIVIEAG.V.IF.ELLNS
Retrocopy	KEPSPPTDEVINTPRVVDRFVEFLKRNENCTLYFEAAWALTNIAS>GTSQ*TKIVIEAGVVHIFTELLNS

Parental	DFEDVQEQAVWALGNIAGDSSVCRDYVLNCSILNPLLTLLTKSTRLTMTRNAVWALSNLCRGKNPPPEFA
	DF.DVQEQAVW.LGNIAGDSSVC.DYVLNCSILNPLL..LT.STRLT.TRNAVW.LSNLC.GK.PPPE.A
Retrocopy	DFRDVQEQAVWTLGNIAGDSSVCQDYVLNCSILNPLLIFLTESTRLTTTRNAVWTLSNLCQGKSPPPEVA

Parental	KVSPCLPVLSRLLFSSDSDLLA-DACWALSYLSDGPNEKIQAVIDSGVCRRLVELLMHNDYKVASPALRA
	KVSPCLP.LSRLLFSSDSDLLA..A.WALSYLSDGPNEKIQAVIDS.V..RLVELLMHNDYK.ASPALR.
Retrocopy	KVSPCLPALSRLLFSSDSDLLA<KAFWALSYLSDGPNEKIQAVIDSAVFQRLVELLMHNDYKMASPALRV

Parental	VGNIVTGDDIQTQVILNCSALPCLLHLLSSPKESIRKEACWTISNITAG
	.G.IVTGDDIQ.QVILNCSA.P.LLHLL.SPKESIRKEACW.ISN.TAG
Retrocopy	MGDIVTGDDIQIQVILNCSAPPYLLHLLRSPKESIRKEACWAISNVTAG

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

RetrogeneDB ID:

retro_mmul_463