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 symbol: MMU.640
• Ensembl ID: ENSMMUG00000008455
• Aliases: None
• Description: importin subunit alpha-7 [Source:RefSeq peptide;Acc:NP_001253921]

Sequence

>retro_mmul_463
CGAAGCAAAACACGTGCAAGAATTTTTAAACGGAGAAATGTGGAGCTGATTAACGAAGAAGTTGCCATGTTGGATAGTCT
TCTCATGGACTCCTAGGTGAGCTCTACTACTAGGGAGAGTGTGATCACAAGAGAGATGGTGGAGATGCTCTTTCCTGGTG
ATTCTGACCTGCAGTTAGCAACCACACAGAAATTCTGGAAACTGCTCTCCAAAGAGCCTAGTCCTCCAACAGATGAAGTT
ATCAACACTCCAAGAGTGGTGGATCGGTTTGTGGAGTTTCTGAAGAGAAATGAGAATTGTACATTATATTTTGAAGCTGC
CTGGGCTCTAACAAATATTGCCTCTTGGAACCTCTCAGTAGACCAAAATTGTCATTGAAGCTGGGGTTGTCCACATTTTT
ACAGAGCTGCTTAATTCAGACTTCAGGGATGTTCAGGAACAGGCAGTCTGGACACTGGGAAACATAGCTGGAGATAGCTC
TGTTTGCCAAGATTACGTCTTGAACTGTTCCATCCTTAATCCTTTGTTAATATTCCTTACCGAGTCCACACGACTGACGA
CGACACGGAATGCAGTCTGGACCCTGTCAAATCTCTGCCAAGGGAAGAGCCCACCCCCAGAGGTTGCAAAGGTCTCTCCT
TGTTTGCCTGCGCTGTCTCGCCTACTCTTCAGCAGCGACTCGGACTTGCTGGCAAAGCTTTCTGGGCCCTTTCTTACCTG
TCTGATGGCCCCAATGAGAAGATCCAGGCAGTCATAGACTCTGCAGTCTTCCAGAGATTGGTAGAGCTGCTGATGCACAA
TGATTACAAAATGGCTTCTCCTGCTCTGAGAGTCATGGGTGACATCGTCACTGGGGATGACATCCAGATCCAGGTCATTC
TTAACTGTTCAGCGCCACCTTACCTTCTCCACTTGCTGAGGAGTCCCAAGGAGTCAATCCGGAAGGAAGCTTGCTGGGCT
ATTTCAAATGTTACTGCTGGC

Alignment

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:

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

Legend:

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

Expression

RNA-Seq

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

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_463 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_463 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_463 has 0 orthologous retrocopies within eutheria group .

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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,