RetrogeneDB ID: retro_mmul_258

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 6:112498762..112499404(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000022192
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MMU.3268
• Ensembl ID: ENSMMUG00000011434
• Aliases: None
• Description: pyrroline-5-carboxylate reductase 2 [Source:RefSeq peptide;Acc:NP_001248709]

Sequence

>retro_mmul_258
ATGGGTGTGAACCTGACACGCAGCAACAAGGAGACAGTGAAGCACAGCGACGTCCTGTTTCTGGCCGTGAAGCCACATAT
CATCCCCTTCATTCTGGATGAGATTGGGGCCGATGTACAAGCCAGACACATCGTGGTCTCCTGTGCGGCTGGTGTCACCA
TCAGCTCTGTGGAGAAGAAGCTGATGGCGTTCCAGCCAGCCCCCAAAGTGATTCGCTGCATGACCAACTCACCTGTGGTA
GTGCGGGAAGGCGCTACAGTGTACGCCATGGGCACCCATGCTCTGGTGGAGGATGGGCAGCTCCTGGAGCAGCTCATGAG
CAGCGTGGGCTTCTGCACTGAGGTGGAAGAGGACCTCATCGATGCCGTCACGGGGCTCAGTGGCAGCGGGCCTGCCTATG
CATTCATGGCTCTGGATGCATTGGCTGATGGTGGGGTGAAGATGGGTTTGCCACGGCGCCTGGCAGTCCGACTCGGGGCC
CAGGCCTTGCTGGGAGCTGCCAAGATGCTGCTGGACTCAGAGCAGCATCCATGCCAGCTCAAGGACATTGTCTGCTCCCC
TGGGGGAGCCACCATCCATGCCCTGCACTTTCTGGAGAGTGGGGGCTTCCGCTCTCTGCTCATCAATGCAGTTGAGGCCT
CC

Alignment

ORF - retro_mmul_258 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.07 %
• Parental protein coverage: 75.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGVNLTRSNKETVKHSDVLFLAVKPHIIPFILDEIGADVQARHIVVSCAAGVTISSVEKKLMAFQPAPKV
          MGVNLTRSNKETVKHSDVLFLAVKPHIIPFILDEIGADVQARHIVVSCAAGVTISSVEKKLMAFQPAPKV
Retrocopy MGVNLTRSNKETVKHSDVLFLAVKPHIIPFILDEIGADVQARHIVVSCAAGVTISSVEKKLMAFQPAPKV

Parental  IRCMTNTPVVVREGATVYAMGTHALVEDGQLLEQLMSSVGFCTEVEEDLIDAVTGLSGSGPAYAFMALDA
          IRCMTN.PVVVREGATVYAMGTHALVEDGQLLEQLMSSVGFCTEVEEDLIDAVTGLSGSGPAYAFMALDA
Retrocopy IRCMTNSPVVVREGATVYAMGTHALVEDGQLLEQLMSSVGFCTEVEEDLIDAVTGLSGSGPAYAFMALDA

Parental  LADGGVKMGLPRRLAVRLGAQALLGAAKMLLDSEQHPCQLKDNVCSPGGATIHALHFLESGGFRSLLINA
          LADGGVKMGLPRRLAVRLGAQALLGAAKMLLDSEQHPCQLKD.VCSPGGATIHALHFLESGGFRSLLINA
Retrocopy LADGGVKMGLPRRLAVRLGAQALLGAAKMLLDSEQHPCQLKDIVCSPGGATIHALHFLESGGFRSLLINA

Parental  VEAS
          VEAS
Retrocopy VEAS

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	3.14 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	19.28 RPM
SRP007412_cerebellum	0.06 RPM	3.42 RPM
SRP007412_heart	0.00 RPM	4.65 RPM
SRP007412_kidney	0.00 RPM	4.58 RPM
SRP007412_liver	0.00 RPM	8.47 RPM
SRP007412_testis	0.04 RPM	11.42 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_258 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_258 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_258 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Loxodonta africana	ENSLAFG00000002110	1 retrocopy	retro_lafr_72,
Macaca mulatta	ENSMMUG00000011434	1 retrocopy	retro_mmul_258 ,
Otolemur garnettii	ENSOGAG00000024897	2 retrocopies	retro_ogar_1366, retro_ogar_1521,