RetrogeneDB ID: retro_ptro_336

Retrocopy location

• Organism: Chimpanzee (Pan troglodytes)
• Coordinates: 1:123884166..123885075(-)
• Located in intron of: ENSPTRG00000001116

Retrocopy information

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

Parental gene information

• Parental gene symbol: AKR7A2
• Ensembl ID: ENSPTRG00000000265
• Aliases: None
• Description: None

Sequence

>retro_ptro_336
GCCGCAGTCACCCGCGCCTTCCTGGAGCACGGCCACACCAAGATAGACATGGCCTTCGTGTACAGCGACAGCCAGTCCAA
GACCATCCTGGGTGGCCTGGGGCTCGGGCTGGGCGGCAGCGACTCCAGAGTGAAAATTGATACCAAGGCCAATCCATTGT
TTGGGAACTCCCTGAAACCTGACAGTCTCTGGTTCCAGCTGGAGATGTCACTGAAGTGGCTGCAGTGTCCCCGAGTGGAC
CTCTTCTACCTGCTCATGCCAGACCACAGCACCCCGGTGGAAGAGACACTGAGTGCCTGCCACCAGCTGCACCAGGAGGG
CAAGTTCCTGGATCTTGGCCTCTCCAACTATGCCACCTGGGAAGTGGCCAAGATCTGTAACCTCTGCAAGAGCAATGGCT
GGACCCTGCCCACTGTGTACCAGGGCATGTACAACGCCACCACCCAGCAGGTGAAAACGCAGCTCTTCCCCTGCCTCAGG
CACTCTGGACTGAGGTTCTATGCCTTCAACCCTCTGGCTGGGGGCCTGCTGACTGGCAAGTACAAGTATGAGGACAAGGA
CGGGAAACAGCCCATGGGCCGCTTCTTTGGGACTCAATGGGCAGAGATCTACAGGAATCGCTTCTGGAAGAAGCACCACT
TCGATGGCATTGCCCAGGTGGAGAAGGCCCTGCAGGCCGCGTATGGCGCCAGCACCCCCAGCATGACCTCGGCTGCCCTC
TGGTGGATGTACCACCACTCACAGCTGCAGGGTGCCCATGGGGACACAGTCATCCTGGGCATGTCCAGCTTGGAGCAGTT
GGAGCAGAACTTGGCAGCGGCAGAGGAAGGGCCCCTGGAGCCAGATGTTGTGGAGGCCTTTAATCAAGCCTGGCATTTGG
TTGCTCACGAATGTCCCAACTACGTCCGC

Alignment

ORF - retro_ptro_336 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.84 %
• Parental protein coverage: 84.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AAAVRAFLERGHTELDTAFMYSDGQSETILGGLGLGLGGGDCRVKIATKANPWDGKSLKPDSVRSQLETS
          AA..RAFLE.GHT..D.AF.YSD.QS.TILGGLGLGLGG.D.RVKI.TKANP..G.SLKPDS...QLE.S
Retrocopy AAVTRAFLEHGHTKIDMAFVYSDSQSKTILGGLGLGLGGSDSRVKIDTKANPLFGNSLKPDSLWFQLEMS

Parental  LKRLQCPRVDLFYLHAPDHGTPVEETLHACHQLHQEGKFVELGLSNYASWEVAEICTLCKSNGWILPTVY
          LK.LQCPRVDLFYL..PDH.TPVEETL.ACHQLHQEGKF..LGLSNYA.WEVA.IC.LCKSNGW.LPTVY
Retrocopy LKWLQCPRVDLFYLLMPDHSTPVEETLSACHQLHQEGKFLDLGLSNYATWEVAKICNLCKSNGWTLPTVY

Parental  QGMYNATTRQVETELFPCLRHFGLRFYAYNPLAGGLLTGKYKYEDKDGKQPVGRFFGNSWAETYRNRFWK
          QGMYNATT.QV.T.LFPCLRH.GLRFYA.NPLAGGLLTGKYKYEDKDGKQP.GRFFG..WAE.YRNRFWK
Retrocopy QGMYNATTQQVKTQLFPCLRHSGLRFYAFNPLAGGLLTGKYKYEDKDGKQPMGRFFGTQWAEIYRNRFWK

Parental  EHHFEAIALVEKALQAAYGASAASVTSAALRWMYHHSQLQGAHGDAVILGMSSLEQLEQNLAATEEGPLE
          .HHF..IA.VEKALQAAYGAS..S.TSAAL.WMYHHSQLQGAHGD.VILGMSSLEQLEQNLAA.EEGPLE
Retrocopy KHHFDGIAQVEKALQAAYGASTPSMTSAALWWMYHHSQLQGAHGDTVILGMSSLEQLEQNLAAAEEGPLE

Parental  PAVVDAFNQAWHLVAHECPNYFR
          P.VV.AFNQAWHLVAHECPNY.R
Retrocopy PDVVEAFNQAWHLVAHECPNYVR

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_prefrontal_cortex	0.04 RPM	23.92 RPM
SRP007412_cerebellum	0.22 RPM	15.16 RPM
SRP007412_heart	0.03 RPM	8.07 RPM
SRP007412_kidney	1.65 RPM	225.82 RPM
SRP007412_liver	1.60 RPM	22.68 RPM
SRP007412_testis	0.00 RPM	27.40 RPM

ChIP-Seq

Pan troglodytes was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ptro_336 retrocopy.

TSS

Pan troglodytes was not studied using FANTOM5 data.

Lab

retro_ptro_336 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ptro_336 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000162482	1 retrocopy	retro_hsap_208,
Macaca mulatta	ENSMMUG00000006891	1 retrocopy	retro_mmul_2629,
Nomascus leucogenys	ENSNLEG00000007852	1 retrocopy	retro_nleu_1857,
Pongo abelii	ENSPPYG00000001793	1 retrocopy	retro_pabe_431,
Pan troglodytes	ENSPTRG00000000265	1 retrocopy	retro_ptro_336 ,