RetrogeneDB ID: retro_mmul_242

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 8:102437015..102437981(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000013741
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSMMUG00000004866
• Aliases: None
• Description: None

Sequence

>retro_mmul_242
ATGAAAAAGCGCAAAGAGCTCAATGAATTGATTGGTTTGGCTGGGGACAGCCGGAGAAAGAAGCCCAAGAAAGGCCCAAG
CAGTCACCATCTGCTTCACACTGAGCCTCCTGACTCAGACTCTGAGTCCAGCTCCAAAGAGGAAGAGGAATTTGGTGTGG
TTGGAAGTCGCTGTCACTTTGCCAAGGGAAACTATTTACGATGCTGCAAGATCTGTTATCCGCTCTGTGGTTTTGTCATC
CTTGCTGCCTGTGTTGTGGCCTGTGTTGGCTCGGCGTGGATGCAGGTTGCTCTCAAGGAGGATCTGGAAGCCCTCAAGGA
AAAATTTCGAACAGTGGAGTCTAATCAGAAAAGCTCATTCCAAGAAATCCCCAAACTTAATGAAGAACTACTCAGCAAGC
AAAAACAACTTGAGAAGATTGAATCTGGAGAGATGGGTTTGAACAAAGTCTGGATAAACATCACAGAAAAGAATAAGCAG
ATTTCTCTGTTGACTTCTGCAGTGAACCACCTCAAAGCCAATATTAAGTCAGCTGTAGACTTGATTAGCCTGCCTACTAC
TGTAGAGGGACTTCAGAAGAGCGTAGCTTCCATTGGCAATACTTTAAACAGTGTCCATCTTGCTGTGGAAGCACTACAGA
AAACTGTGGGTGAACACAAGAAAACGATGGGATTACTGCAGAGTGATATGAATCAGCACTTCTTGAAGGAGACTCCTGGA
AGCAACCAGATCATTCCATCACCTTCAACCACATCAGAACTTGACAATAAAACCCACAGTGAGAATTTGAAACAGATGGG
TGATAGATCTGCCTCTCTGAAAAGAGTGTCTTTGGATCAAGTCACCAACAAAACAGATACGGTAAAAATCCAAAGCATAA
AGAAAGAAGATAGTTCAAATTCTCAGGTATCCAAGCTAAGAGAGAAACTCCAGATGATCAGTGCTTGTACAAACAAACCT
GAAAGC

Alignment

ORF - retro_mmul_242 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.08 %
• Parental protein coverage: 53.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKKRKELNALIGLAGDSRRKKPKKGPSSHRLLRTEPPDSDSESSSEEEEEFGVVGNRSRFAKGDYLRCCK
          MKKRKELN.LIGLAGDSRRKKPKKGPSSH.LL.TEPPDSDSESSS.EEEEFGVVG.R..FAKG.YLRCCK
Retrocopy MKKRKELNELIGLAGDSRRKKPKKGPSSHHLLHTEPPDSDSESSSKEEEEFGVVGSRCHFAKGNYLRCCK

Parental  ICYPLCGFVILAACVVACVGLVWMQVALKEDLDALKEKFRTMESNQKSSFQEIPKLNEELLSKQKQLEKI
          ICYPLCGFVILAACVVACVG..WMQVALKEDL.ALKEKFRT.ESNQKSSFQEIPKLNEELLSKQKQLEKI
Retrocopy ICYPLCGFVILAACVVACVGSAWMQVALKEDLEALKEKFRTVESNQKSSFQEIPKLNEELLSKQKQLEKI

Parental  ESGEMGLNKVWINITEMNKQISLLTSAVNHLKANVKSAADLISLPATVEGLQKSVASIGNTLNSVHLAVE
          ESGEMGLNKVWINITE.NKQISLLTSAVNHLKAN.KSA.DLISLP.TVEGLQKSVASIGNTLNSVHLAVE
Retrocopy ESGEMGLNKVWINITEKNKQISLLTSAVNHLKANIKSAVDLISLPTTVEGLQKSVASIGNTLNSVHLAVE

Parental  ALQKTVDEQKTTMELLQSDMNQHFLKETPGSNQIIPSPSATSELDNKTHSENLKQ
          ALQKTV.E.K.TM.LLQSDMNQHFLKETPGSNQIIPSPS.TSELDNKTHSENLKQ
Retrocopy ALQKTVGEHKKTMGLLQSDMNQHFLKETPGSNQIIPSPSTTSELDNKTHSENLKQ

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	45.49 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	34.51 RPM
SRP007412_cerebellum	0.13 RPM	38.36 RPM
SRP007412_heart	0.00 RPM	22.38 RPM
SRP007412_kidney	0.00 RPM	40.73 RPM
SRP007412_liver	0.04 RPM	15.99 RPM
SRP007412_testis	0.34 RPM	90.88 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_242 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_242 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_242 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000014593	1 retrocopy	retro_mluc_2389,
Macaca mulatta	ENSMMUG00000004866	1 retrocopy	retro_mmul_242 ,
Ictidomys tridecemlineatus	ENSSTOG00000016250	1 retrocopy	retro_itri_1166,
Tupaia belangeri	ENSTBEG00000006829	1 retrocopy	retro_tbel_4314,