RetrogeneDB ID: retro_mmul_1605

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 3:58475278..58475834(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: GNA11
• Ensembl ID: ENSMMUG00000002961
• Aliases: None
• Description: guanine nucleotide-binding protein subunit alpha-11 [Source:RefSeq peptide;Acc:NP_001253785]

Sequence

>retro_mmul_1605
ATGACTCTGGAGTCCGTGATGGCGCGTTGCCTGAGCGATGAGGTGAAGGAGCGGATCAACGCCGAGATCCAGAAGCAGCT
GCAGGGGACAAGCGCGACGCCCGGCGCCAGCTCAAGCTGCTACTGCTCCGCAGGGGCGAGAGCGGGAAGAGCATCTTCAT
CAAACAGACGCGCATCGTCCAGGGCGCCTGCTACTCGCAGGAGGCCAAGCGCGGCTTCACCAAGCTCGTCTACCACATCT
TCACCGCCACCCAGGCCACGATCCGGGCCGTGGAGATGCTGAACATCCTCCACAAGGAGGAGCAGAACAAGGCCAGTGGC
TCCTGATCCGAGAGGTGGACGCAGAGAAGGTGACCACCTTCGAGCATTGGTACGTCAGCGCCATCAGGACCCTGTGGGAC
GACCCCGGCATCCAGGAGTGCTGCGACCGCAGGCGCCAGTACCAGCTCTCGGACCCGGCCAAGTACTGCCTGACGGACGC
TGCCCGCAGGGCCGCCTCGGGCCACGTGCCCACCCCGCAGGACGCGCTGCGGGGCCGCGTGCCCACCACCGGCATC

Alignment

ORF - retro_mmul_1605 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.39 %
• Parental protein coverage: 52.65 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MTLESMMACCLSDEVKESKRINAEIEKQLRR-DKRDARRELKLLLLGTGESGKSTFIKQMRIIHGAGYSE
          MTLES.MA.CLSDEVKE..RINAEI.KQL...DKRDARR.LKLLLL..GESGKS.FIKQ.RI..GA.YS.
Retrocopy MTLESVMARCLSDEVKE--RINAEIQKQLQG<DKRDARRQLKLLLLRRGESGKSIFIKQTRIVQGACYSQ

Parental  EDKRSFTKLVYQNIFTAMQAMIRAMETLKILYKYEQNKANA-LLIREVDVEKVTTFEHQYVSAIKTLWDD
          E.KR.FTKLVY..IFTA.QA.IRA.E.L.IL.K.EQNKA...LLIREVD.EKVTTFEH.YVSAI.TLWDD
Retrocopy EAKRGFTKLVY-HIFTATQATIRAVEMLNILHKEEQNKASG<LLIREVDAEKVTTFEHWYVSAIRTLWDD

Parental  PGIQECYDRRREYQLSDSAKYYLTDVDRIATSGYLPTQQDVLRVRVPTTGI
          PGIQEC.DRRR.YQLSD.AKY.LTD..R.A.SG..PT.QD.LR.RVPTTGI
Retrocopy PGIQECCDRRRQYQLSDPAKYCLTDAARRAASGHVPTPQDALRGRVPTTGI

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	18.26 RPM
SRP007412_brain_prefrontal_cortex	0.79 RPM	43.31 RPM
SRP007412_cerebellum	0.00 RPM	23.44 RPM
SRP007412_heart	0.00 RPM	19.49 RPM
SRP007412_kidney	0.00 RPM	29.22 RPM
SRP007412_liver	0.08 RPM	23.20 RPM
SRP007412_testis	0.08 RPM	95.78 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1605 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1605 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1605 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
Homo sapiens	ENSG00000088256	1 retrocopy	retro_hsap_3865,
Gorilla gorilla	ENSGGOG00000014995	3 retrocopies	retro_ggor_1760, retro_ggor_2603, retro_ggor_2604,
Macaca mulatta	ENSMMUG00000002961	1 retrocopy	retro_mmul_1605 ,
Pongo abelii	ENSPPYG00000009366	1 retrocopy	retro_pabe_3045,