RetrogeneDB ID: retro_mmul_712

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 1099214739355:26637..27355(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000029610
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RSU1
• Ensembl ID: ENSMMUG00000016067
• Aliases: None
• Description: Ras suppressor protein 1 [Source:HGNC Symbol;Acc:10464]

Sequence

>retro_mmul_712
TCCTTATCCCATACCATACAGCTGGTCCTCAGCCATAACATGCTTGCAGTGGTGCCACTAAACACAGCAGAACTGAAGAA
TTTGGAAGTGCTCAACTTCCTTAATAGCCAAATTGAGGAGTTGCCCACACAGATCAGCAGCCTTCAGAAACTCAAACACA
TGAACCTGGGCATGAATGGGCTAAATACTTTGCCTGAAAGATTTTGCTTTCTACCCAGCTCTTGACCTTCTGAACTTGAT
GTACACTTTGAATGAAAATTCTCTTCCTGGAAACTTCATCTACCTTACCACCTTCTGTGCACTCTTTGGTAAGTGACAAT
GATTTTGAAATCCTGCAACCAGATATTAGGAAGCTCACAAAGTTGCAGATACCCAGCTTTAGGGATAACAACCTGATCTT
GCAGCCTAGGGAAACTGGGGAGCTTACCCAACTTAAAGAACTCCACATTCGGGGCAACTGCCTGACCCTTCCGCCCCCAG
AACTAGGAAACTTATATTTAACTGGTCAGAAGAAGGTATTCAAAGTGGAGAACAGCCCCTGGGTTACCCCAGTTGCTGGC
CAGTTCCAGCTTGGTGTGTCCTGTGTGTTTGAATGTGTCCGCTCCGAGACATATGAGTACTTCCATGGCAGCATATGCAG
GCAAATCCAGAACAACCAAAAAAGAATAATCACAAATCAAAAAAGATTAGCTGGAAACACCTGACAGTCAGTAACAAA

Alignment

ORF - retro_mmul_712 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.84 %
• Parental protein coverage: 98.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TLSHITQLVLSHNKLTTVPPNIAELKNLEVLNFFNNQIEELPTQISSLQKLKHLNLGMNRLNTLP-RGFG
          .LSH..QLVLSHN.L..VP.N.AELKNLEVLNF.N.QIEELPTQISSLQKLKH.NLGMN.LNTLP...F.
Retrocopy SLSHTIQLVLSHNMLAVVPLNTAELKNLEVLNFLNSQIEELPTQISSLQKLKHMNLGMNGLNTLP>KDFA

Parental  SLPALEVLDLTYNNLSENSLPGNFFYLTTLRALY-LSDNDFEILPPDIGKLTKLQILSLRDNDLISLPKE
          ..PAL..L.L.Y..L.ENSLPGNF.YLTT..AL...SDNDFEIL.PDI.KLTKLQI.S.RDN.LI..P.E
Retrocopy FYPALDLLNLMYT-LNENSLPGNFIYLTTFCALF>VSDNDFEILQPDIRKLTKLQIPSFRDNNLILQPRE

Parental  IGELTQLKELHIQGNRLTVLPPELGNLDLTGQKQVFKAENNPWVTPIADQFQLGVSHVFEYIRSETYKYL
          .GELTQLKELHI.GN.LT..PPELGNL.LTGQK.VFK.EN.PWVTP.A.QFQLGVS.VFE..RSETY.Y.
Retrocopy TGELTQLKELHIRGNCLTLPPPELGNLYLTGQKKVFKVENSPWVTPVAGQFQLGVSCVFECVRSETYEYF

Parental  YG-RHMQANPEPPKKNNDKSKKISRKPLAAKNR
          .G..HMQANPE.PKKNN.KSKKIS.K.L...N.
Retrocopy HG<QHMQANPEQPKKNNHKSKKISWKHLTVSNK

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	13.56 RPM
SRP007412_brain_prefrontal_cortex	0.08 RPM	11.66 RPM
SRP007412_cerebellum	0.00 RPM	7.43 RPM
SRP007412_heart	0.06 RPM	21.14 RPM
SRP007412_kidney	0.00 RPM	19.01 RPM
SRP007412_liver	0.00 RPM	10.85 RPM
SRP007412_testis	0.08 RPM	9.35 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_712 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_712 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_712 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000148484	1 retrocopy	retro_hsap_575,
Gorilla gorilla	ENSGGOG00000028048	1 retrocopy	retro_ggor_512,
Macropus eugenii	ENSMEUG00000006702	1 retrocopy	retro_meug_2092,
Macaca mulatta	ENSMMUG00000001544	1 retrocopy	retro_mmul_901,
Macaca mulatta	ENSMMUG00000016067	1 retrocopy	retro_mmul_712 ,
Monodelphis domestica	ENSMODG00000009942	1 retrocopy	retro_mdom_338,
Nomascus leucogenys	ENSNLEG00000012444	1 retrocopy	retro_nleu_462,
Pongo abelii	ENSPPYG00000002120	1 retrocopy	retro_pabe_611,
Pan troglodytes	ENSPTRG00000002325	1 retrocopy	retro_ptro_425,
Tarsius syrichta	ENSTSYG00000002386	1 retrocopy	retro_tsyr_730,