RetrogeneDB ID: retro_mmul_561

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1:173312873..173313844(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MMU.2937
• Ensembl ID: ENSMMUG00000012762
• Aliases: None
• Description: renin receptor precursor [Source:RefSeq peptide;Acc:NP_001244554]

Sequence

>retro_mmul_561
AGTTCCCAGTCTGTTATTTTCATAAATGGAAATTGGCCTATACCAGGAGAGTGAATCCCGGACGTGGTGCATTGTCCATG
GGCTTCTCTGTGAAGGAAAACCTTTCTTGGTCAGGACTTTCTGTGGGTGACCTATTTCATCGTCCTTGGGCTACCGTCAT
GGTGATGGTGAAGGGAGTGGACAAACTGGCTCTACCACCAGGCAGTGTCATTTCATACCTTTTGGAGAATACAGTTCCTT
TTGGTCTTGACAGTGTTGCAAATTCCATTCGCTCTTTATTTCCTGAGGAAATTCCTGTTTTGCAGTTGGTTCTTAGTGAG
GAAAGAGTGTATTTTGTAGGGAAGGCAAACTCAGTGTTTGAAGACCTTTCAGTCACCTTAGGACAGCTCCATAATCACTT
GTTTCAGGAATATTCCATTCTCAGTTCACTTCCCCTGAATTCTCTGAGTAGGAACAATGGAGTTGACCTGCTCTTTCTTT
CTGAAACTCCAGTGCTACATGATATTTTCAGCTTGGTGTCTTATCATAAGCATCTAGCCAAGGGTCATTCTCCTGATTTA
TGTTCACTGGAACTGGCAGGTTTGGATGAAACTGGGAAGCATTATGGGGAAGACTCTGAACAATTCAGAGTTGCTTCTAA
AATCCTTGTTGACATTCTTCAAAAGTTTGCAGGTGACATGTACAATCTTTACGGTGGGAATGCAGTGGTAGAGTTAGTCA
CTGTTAAGTCATTTGACACCTCCCTCGTGAGGAAGACAAGGACTATCTTTGAGGCAAAACAAATGAAGAACCCAGCAAGT
CCCTGTAACCTTGCATATAATTTTGAATATTCAGTGATTTTCAACATTATGCTTTGAATAATGATTGCCTTGACCGTGGC
TGTGGTTATCACCTCTTACAATATTTGGAACATGGATTCTGGATATGATAGCATCATTTAGAGGATTACAAACCAGGATA
TTCGAATAGAT

Alignment

ORF - retro_mmul_561 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.62 %
• Parental protein coverage: 93.43 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SPGSVVFRNGNWPIPGERIPDVA-ALSMGFSVKEDLSWPGLAVGNLFHRPRATVMVMVKGVDKLALPPGS
          S..SV.F.NGNWPIPGE.IPDV..ALSMGFSVKE.LSW.GL.VG.LFHRP.ATVMVMVKGVDKLALPPGS
Retrocopy SSQSVIFINGNWPIPGE*IPDVV<ALSMGFSVKENLSWSGLSVGDLFHRPWATVMVMVKGVDKLALPPGS

Parental  VISYPLENAVPFSLDSVANSIHSLFSEETPVVLQLAPSEERVYMVGKANSVFEDLSVTLRQLRNRLFQEN
          VISY.LEN.VPF.LDSVANSI.SLF.EE.PV.LQL..SEERVY.VGKANSVFEDLSVTL.QL.N.LFQE.
Retrocopy VISYLLENTVPFGLDSVANSIRSLFPEEIPV-LQLVLSEERVYFVGKANSVFEDLSVTLGQLHNHLFQEY

Parental  SVLSSLPLNSLSRNNEVDLLFLSELQVLHDISSLLSRHKHLAKDHSPDLYSLELAGLDEIGKRYGEDSEQ
          S.LSSLPLNSLSRNN.VDLLFLSE..VLHDI.SL.S.HKHLAK.HSPDL.SLELAGLDE.GK.YGEDSEQ
Retrocopy SILSSLPLNSLSRNNGVDLLFLSETPVLHDIFSLVSYHKHLAKGHSPDLCSLELAGLDETGKHYGEDSEQ

Parental  FRDASKILVDALQKFADDMYNLYGGNAVVELVTVKSFDTSLVRKTRTILEAKQAKNPASPYNLAYKYNFE
          FR.ASKILVD.LQKFA.DMYNLYGGNAVVELVTVKSFDTSLVRKTRTI.EAKQ.KNPASP.NLA..YNFE
Retrocopy FRVASKILVDILQKFAGDMYNLYGGNAVVELVTVKSFDTSLVRKTRTIFEAKQMKNPASPCNLA--YNFE

Parental  YSVVFNMVLWIMIALALAVIITSYNIWNMDPGYDSIIYRMTNQKIRMD
          YSV.FN..L.IMIAL..AV.ITSYNIWNMD.GYDSII.R.TNQ.IR.D
Retrocopy YSVIFNIML*IMIALTVAVVITSYNIWNMDSGYDSII*RITNQDIRID

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	127.51 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	88.37 RPM
SRP007412_cerebellum	0.06 RPM	96.15 RPM
SRP007412_heart	0.00 RPM	26.62 RPM
SRP007412_kidney	0.12 RPM	118.78 RPM
SRP007412_liver	0.00 RPM	28.26 RPM
SRP007412_testis	0.11 RPM	13.65 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_561 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_561 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_561 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_280
Pan troglodytes	retro_ptro_233
Gorilla gorilla	retro_ggor_323
Pongo abelii	retro_pabe_389

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000006109	1 retrocopy	retro_dnov_2102,
Homo sapiens	ENSG00000182220	1 retrocopy	retro_hsap_280,
Gorilla gorilla	ENSGGOG00000000532	1 retrocopy	retro_ggor_323,
Myotis lucifugus	ENSMLUG00000001159	1 retrocopy	retro_mluc_1613,
Macaca mulatta	ENSMMUG00000012762	1 retrocopy	retro_mmul_561 ,
Nomascus leucogenys	ENSNLEG00000001441	1 retrocopy	retro_nleu_1491,
Pongo abelii	ENSPPYG00000020251	1 retrocopy	retro_pabe_389,
Pan troglodytes	ENSPTRG00000021803	1 retrocopy	retro_ptro_233,