RetrogeneDB ID: retro_mmul_150

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 5:50373366..50375220(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000007366
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: ATP6V1A
• Ensembl ID: ENSMMUG00000020740
• Aliases: None
• Description: V-type proton ATPase catalytic subunit A [Source:RefSeq peptide;Acc:NP_001247587]

Sequence

>retro_mmul_150
ATGGATTTTTCCAAGCTACCCAAAATACTCGATGAAGATAAAGAAAGCACATTTGGTTATGTGCATGGGGTCTCAGGACC
TGTGGTTACAGCCTGTGACATGGCGGGTGCAGCCATGTATGAGCTGGTGAGAGTGGGCCACAGCGAGTTGGTTGGAGAGA
TTATTCGATTGGAGGGTGACATGGCTACTATTCAGGTGTATGAAGAAACTTCTGGTGTTTCTGTTGGAGATCCTGTACTT
CGCACTGGTAAACCCCTCTCTGTAGAGCTTGGTCCTGGCATTATGGGAGCCATTTTTGATGGTATTCAAAGACCTTTGTC
GGATATCAGCAGTCAGACCCAAAGCATCTACATCCCCAGAGGAGTAAACGTGTCTGCTCTTAGCAGAGATATCAAATGGG
ACTTTACACCTTGCAAAAACCTACGGGTTGGTAGTCATATCACTGGCGGAGACATTTATGGAATTGTCAATGAGAACTCG
CTTATCAAACACAAAATCATGTTACCCCCACGAAACAGAGGAACTGTAACTTATATTGCTCCACCTGGGAATTATGATAC
CTCTGATGTTGTCTTGGAGCTTGAATTTGAAGGTGTAAAGGAAAAGTTCACCATGGTGCAAGTATGGCCTGTACGTCAAG
TTCGACCTGTCACTGAGAAGCTGCCAGCCAATCATCCTCTGTTGACTGGCCAGAGAGTCCTTGATGCCCTTTTTCCGTGT
GTCCAGGGAGGAACTACTGCTATCCCGGGAGCCTTTGGCTGTGGAAAGACAGTGATATCACAGTCTCTATCCAAGTATTC
TAACAGTGATGTAATCATCTATGTAGGATGTGGTGAAAGAGGAAATGAGATGTCTGAAGTCCTCCGGGACTTCCCAGAGC
TCACAATGGAGGTTGATGGTAAGGTAGAGTCAATTATGAAGAGGACAGCTTTGGCAGCCAATACCTCCAATATGCCTGTT
GCTGCTAGAGAAGCCTCTATTTATACTGGAATCACACTGTCCGAGTACTTCCGTGACATGGGCTATCATGTCAGTATGAT
GGCTGACTCTACCTCTAGATGGGCTGAGGCCCTTAGAGAAATCTCTGGTCGTTTAGCTGAAATGCCTGCAGATAGTGGAT
ATCCAGCCTATCTTGGTGCCCGTCTGGCCTCTTTTTATGAACGAGCAGGCAGGGTGAAATGTCTTGGAAATCCTGAAAGA
GAAGGGAGTGTCAGCATTGTAGGAGCAGTTTCTCCACCTGGTGGTGATTTTTCTGATCCAGTTACATCTGCCACTCTTGG
TATCGTTCAGGTGTTCTGGGGCTTAGATAAGAAACTAGCTCAGCGTAAGCATTTCCCCTCTGTCAATTGGCTCATCAGCT
ACAGCAAGTATATGCGTGCCTTGGATGAATACTATGACAAACACTTCACAGAGTTCGTTCCTCTGAGGACCAAAGCTAAG
GAAATTCTGCAGGAAGAAGAAGACCTGGCAGAAATTGTACAGCTTGTCGGAAAGGCTTCTTTGGCAGAAACAGATAAAAT
CACTCTGGAGGTAGCAAAACTTATCAAAGATGATTTCCTACAACAAAATGGATATACTCCTTATGACAGGTTCTGCCCAT
TCTACAAGACAGTAGGGATGCTGTCCAACATGATTGCATTTTACGATATGGCTCGTAGAGCTGTTGAAACCACTGCCCAG
AGTGACAATAAAATCACATGGTCCATTATTCGTGAACACATGGGAGACATCCTCTATAAACTTTCCTCCATGAAATTCAA
GGATCCACTGAAAGATGGTGAGGCAAAGATCAAGAGCGACTATGCACAACTTCTTGAAGATATGCAGAATGCATTCCGTA
GCCTTGAAGATTAG

Alignment

ORF - retro_mmul_150 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.84 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDFSKLPKILDEDKESTFGYVHGVSGPVVTACDMAGAAMYELVRVGHSELVGEIIRLEGDMATIQVYEET
          MDFSKLPKILDEDKESTFGYVHGVSGPVVTACDMAGAAMYELVRVGHSELVGEIIRLEGDMATIQVYEET
Retrocopy MDFSKLPKILDEDKESTFGYVHGVSGPVVTACDMAGAAMYELVRVGHSELVGEIIRLEGDMATIQVYEET

Parental  SGVSVGDPVLRTGKPLSVELGPGIMGAIFDGIQRPLSDISSQTQSIYIPRGVNVSALSRDIKWDFTPCKN
          SGVSVGDPVLRTGKPLSVELGPGIMGAIFDGIQRPLSDISSQTQSIYIPRGVNVSALSRDIKWDFTPCKN
Retrocopy SGVSVGDPVLRTGKPLSVELGPGIMGAIFDGIQRPLSDISSQTQSIYIPRGVNVSALSRDIKWDFTPCKN

Parental  LRVGSHITGGDIYGIVNENSLIKHKIMLPPRNRGTVTYIAPPGNYDTSDVVLELEFEGVKEKFTMVQVWP
          LRVGSHITGGDIYGIVNENSLIKHKIMLPPRNRGTVTYIAPPGNYDTSDVVLELEFEGVKEKFTMVQVWP
Retrocopy LRVGSHITGGDIYGIVNENSLIKHKIMLPPRNRGTVTYIAPPGNYDTSDVVLELEFEGVKEKFTMVQVWP

Parental  VRQVRPVTEKLPANHPLLTGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSLSKYSNSDVIIYVGCGER
          VRQVRPVTEKLPANHPLLTGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSLSKYSNSDVIIYVGCGER
Retrocopy VRQVRPVTEKLPANHPLLTGQRVLDALFPCVQGGTTAIPGAFGCGKTVISQSLSKYSNSDVIIYVGCGER

Parental  GNEMSEVLRDFPELTMEVDGKVESIMKRTALVANTSNMPVAAREASIYTGITLSEYFRDMGYHVSMMADS
          GNEMSEVLRDFPELTMEVDGKVESIMKRTAL.ANTSNMPVAAREASIYTGITLSEYFRDMGYHVSMMADS
Retrocopy GNEMSEVLRDFPELTMEVDGKVESIMKRTALAANTSNMPVAAREASIYTGITLSEYFRDMGYHVSMMADS

Parental  TSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGNPEREGSVSIVGAVSPPGGDFSDP
          TSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGNPEREGSVSIVGAVSPPGGDFSDP
Retrocopy TSRWAEALREISGRLAEMPADSGYPAYLGARLASFYERAGRVKCLGNPEREGSVSIVGAVSPPGGDFSDP

Parental  VTSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMRALDEYYDKHFTEFVPLRTKAKEILQEEEDLA
          VTSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMRALDEYYDKHFTEFVPLRTKAKEILQEEEDLA
Retrocopy VTSATLGIVQVFWGLDKKLAQRKHFPSVNWLISYSKYMRALDEYYDKHFTEFVPLRTKAKEILQEEEDLA

Parental  EIVQLVGKASLAETDKITLEVAKLIKDDFLQQNGYTPYDRFCPFYKTVGMLSNMIAFYDMARRAVETTAQ
          EIVQLVGKASLAETDKITLEVAKLIKDDFLQQNGYTPYDRFCPFYKTVGMLSNMIAFYDMARRAVETTAQ
Retrocopy EIVQLVGKASLAETDKITLEVAKLIKDDFLQQNGYTPYDRFCPFYKTVGMLSNMIAFYDMARRAVETTAQ

Parental  SDNKITWSIIREHMGDILYKLSSMKFKDPLKDGEAKIKSDYAQLLEDMQNAFRSLED
          SDNKITWSIIREHMGDILYKLSSMKFKDPLKDGEAKIKSDYAQLLEDMQNAFRSLED
Retrocopy SDNKITWSIIREHMGDILYKLSSMKFKDPLKDGEAKIKSDYAQLLEDMQNAFRSLED

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	2.02 RPM	23.42 RPM
SRP007412_brain_prefrontal_cortex	3.89 RPM	75.36 RPM
SRP007412_cerebellum	1.74 RPM	15.37 RPM
SRP007412_heart	0.29 RPM	1.24 RPM
SRP007412_kidney	2.58 RPM	20.66 RPM
SRP007412_liver	0.40 RPM	2.81 RPM
SRP007412_testis	0.34 RPM	3.43 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_150 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_150 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_150 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Macaca mulatta	ENSMMUG00000020740	1 retrocopy	retro_mmul_150 ,
Ictidomys tridecemlineatus	ENSSTOG00000009445	1 retrocopy	retro_itri_530,