RetrogeneDB ID: retro_ggor_1505

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 20:25732122..25732818(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: VTCN1
• Ensembl ID: ENSGGOG00000025814
• Aliases: None
• Description: None

Sequence

>retro_ggor_1505
AGTTTCTACAGCATAATTAGCATCATCATTACTCTGGCTGGAGCAATTGCACTCATCATTGGCTTTGGTATTTCAGGGAG
ACACTCCATCACAGTCGCTACTCTCACCTCAGCTGGGAACATTGGGGAGGATGGAATCCTGAGCTGCACTTTTGAACTTG
ACATCAAACTTTCTGATATCATGATACAATGGCTGAAGGAAAGGGTTATAGGCTTGGTCCATGAGTTCAAAGAAGACAAA
GATGAGCTGTCAGAGCAGGATGAAATGTTCAGAGGCCTGACAGCAGTGCTTGCTGATCAAGTGATAGTTGGCAATGCCTC
TCTGCAGCTGAAAAACATACAACTCACAGATGCTGGCACCTACAAATGTTATATCATCACTTCTAAAGGCAAGGGGAATG
CTAACCTTGAGTATAAAACTGGAGCCTTCAGCATGCCAGAGGTGAAAGTAGACTATAATGCCAGCTCAGAGACCTTGCGA
TGTGAGGCTCCCTTATGGGTCTCCCAGCCCACAGTGGTCTGAAGATCCCTAGTTGACCAGGGAGCCAAATTCTCAGAAGT
CTCCAATACCACCTTTGAGCTGAACTCTGAGGATGTGGCCATGAAGGTTGTGTCTGTGCTCTACAATGTTACGATCAACA
ACACATACTCCTGTATGATTGAAAATGACATTGCCAAAGCAACAGGGGATATCAAA

Alignment

ORF - retro_ggor_1505 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.36 %
• Parental protein coverage: 93.93 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSHSIISIIIILAGAIALIIGFGISGRHSITVTTVASAGNIGEDGILSCTFEPDIKLSDIVIQWLKEGVL
          S..SIISIII.LAGAIALIIGFGISGRHSITV.T..SAGNIGEDGILSCTFE.DIKLSDI.IQWLKE.V.
Retrocopy SFYSIISIIITLAGAIALIIGFGISGRHSITVATLTSAGNIGEDGILSCTFELDIKLSDIMIQWLKERVI

Parental  GLVHEFKEGKDELSEQDELFRGRTAVFADQVIVGNASLRLKNVQLTDAGTYKCYIITSKGKGNANLEYKT
          GLVHEFKE.KDELSEQDE.FRG.TAV.ADQVIVGNASL.LKN.QLTDAGTYKCYIITSKGKGNANLEYKT
Retrocopy GLVHEFKEDKDELSEQDEMFRGLTAVLADQVIVGNASLQLKNIQLTDAGTYKCYIITSKGKGNANLEYKT

Parental  GAFSMPEVNVDYNASSETLRCEAPRWFPQPTVVWASQVDQGANFSEVSNTSFELNSENVTMKVVSVLYNV
          GAFSMPEV.VDYNASSETLRCEAP.W..QPTVV..S.VDQGA.FSEVSNT.FELNSE.V.MKVVSVLYNV
Retrocopy GAFSMPEVKVDYNASSETLRCEAPLWVSQPTVV*RSLVDQGAKFSEVSNTTFELNSEDVAMKVVSVLYNV

Parental  TINNTYSCMIENDIAKATGDIK
          TINNTYSCMIENDIAKATGDIK
Retrocopy TINNTYSCMIENDIAKATGDIK

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	0.00 RPM	0.05 RPM
SRP007412_cerebellum	0.00 RPM	0.00 RPM
SRP007412_heart	0.00 RPM	0.00 RPM
SRP007412_kidney	0.00 RPM	3.84 RPM
SRP007412_liver	0.00 RPM	0.32 RPM
SRP007412_testis	0.00 RPM	0.52 RPM

ChIP-Seq

Gorilla gorilla was not studied using ChIP-Seq data.

EST

Gorilla gorilla was not studied using EST data.

TSS

Gorilla gorilla was not studied using FANTOM5 data.

Lab

retro_ggor_1505 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1505 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2420
Pan troglodytes	retro_ptro_1394

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005097	1 retrocopy	retro_chof_1322,
Dasypus novemcinctus	ENSDNOG00000013317	1 retrocopy	retro_dnov_1181,
Homo sapiens	ENSG00000134258	1 retrocopy	retro_hsap_2420,
Gorilla gorilla	ENSGGOG00000025814	1 retrocopy	retro_ggor_1505 ,
Macaca mulatta	ENSMMUG00000016964	1 retrocopy	retro_mmul_611,
Nomascus leucogenys	ENSNLEG00000005256	1 retrocopy	retro_nleu_2811,
Pan troglodytes	ENSPTRG00000001164	1 retrocopy	retro_ptro_1394,