RetrogeneDB ID: retro_ggor_1443

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 19:32097036..32097618(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF396
• Ensembl ID: ENSGGOG00000023692
• Aliases: None
• Description: None

Sequence

>retro_ggor_1443
CCCCACCACGAAGAGTGTCCATAAGGAGAGCTCCACCTTCTCTGACTGAGGCCGGAGGTGCACACAAAGGCGCAGATCCT
GGAGCTGCTGGTGCTGGAGCAGTTCCTGGCCATCCTCCCAGAAAAACTGCAGCCCTGGGTGCAGAGGCATCATCCAGAAA
ATGGAGAGGAAGCTGTGACTATGCTGGAGGATGTGCAGAGAGAGTTTGATGGACCAAAGCAGGTCTTCTTTTTTGGACGA
AGAAGGGACATGGTTGCAGAGAAGCTAGCACCTTCAGAAATCACTGAGCAATTGCCAACTAGCCAGCGCACGCCCGTGAA
GAAGCAGCTCCAGCGAGCATCATGGGAGCTGCAGTCCTTAAGACCACATGATGAAGACATCAAAACTATAAATGTGAAAT
CCGCTTCAAGGCAAAAGACTTCTTCAGGCATAGAACTGCATTGCGATGTTTCGAACATCCTCGGTATAAATGCCTCCCAG
AGTTCCACATATAGAGGAATGTATGAACAAGATGATTCAAAATATGAACATAGGATTGCAGAGTCCCAAAAGAATATGTA
CTTCAAGACTAGGCTGAAGTGT

Alignment

ORF - retro_ggor_1443 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.16 %
• Parental protein coverage: 55.99 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PHEALSRLRELCHLWLRPEVHTKEQILELLVLEKFLAILPKELQAWVQKHHPENGEETVTMLEDVERELD
          PH.......EL..L.LRPEVHTK.QILELLVLE.FLAILP..LQ.WVQ.HHPENGEE.VTMLEDV.RE.D
Retrocopy PHHEECP*GELHLL*LRPEVHTKAQILELLVLEQFLAILPEKLQPWVQRHHPENGEEAVTMLEDVQREFD

Parental  GPKQIFF--GRKDMIAEKLAPSETTEELPSSQLMPVKKHLQGASWELQSLRPHDEDIKTTNVKSASRQKT
          GPKQ.FF...R.DM.AEKLAPSE.TE.LP.SQ..PVKK.LQ.ASWELQSLRPHDEDIKT.NVKSASRQKT
Retrocopy GPKQVFFFGRRRDMVAEKLAPSEITEQLPTSQRTPVKKQLQRASWELQSLRPHDEDIKTINVKSASRQKT

Parental  SLGIELHCNVSNILHMNASQSSTYRGTYEQ-DGRFEKR----QGNPSWKKQQKC
          S.GIELHC.VSNIL..NASQSSTYRG.YEQ.D...E.R....Q.N...K...KC
Retrocopy SSGIELHCDVSNILGINASQSSTYRGMYEQDDSKYEHRIAESQKNMYFKTRLKC

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	2.06 RPM
SRP007412_cerebellum	0.00 RPM	0.83 RPM
SRP007412_heart	0.03 RPM	0.22 RPM
SRP007412_kidney	0.00 RPM	2.82 RPM
SRP007412_liver	0.00 RPM	0.92 RPM
SRP007412_testis	0.10 RPM	7.87 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_1443 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1443 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1996
Pan troglodytes	retro_ptro_1332

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000186496	1 retrocopy	retro_hsap_1996,
Gorilla gorilla	ENSGGOG00000023692	1 retrocopy	retro_ggor_1443 ,
Pongo abelii	ENSPPYG00000009107	1 retrocopy	retro_pabe_1637,
Pan troglodytes	ENSPTRG00000009970	1 retrocopy	retro_ptro_1332,