RetrogeneDB ID: retro_ggor_2308

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:4010968..4011577(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GLRX3
• Ensembl ID: ENSGGOG00000010771
• Aliases: None
• Description: None

Sequence

>retro_ggor_2308
CTCAACCTTCGCTTACAGAAACTGACTCATGCTGCCCCCTGCACGCTGTTTATGAAAGGAACTCCTCAAGAACCACTCTG
CGGTTTCAGCAAGCAGATGGTGGAAATTCTTCACAAACATAATATTTAGTTTAGCAGTTTTGATGTCTTCTCAGATCAGG
AGGTTCGCCAGGGGCTCAAAGCCTATTCCAATTGGCCTACCTATCCTCAGCTCTACGTTTCTGGAGAGCTCATAGGAGGA
CTTGATGTAATTAAGGAGCTACACGCATCTGAAGAACTAGATACAATTTGTCCCAAAGCTCCCAAATTAGAGGAAAGGCT
CAAAGTGCTGACAAATGAAGCTTCTATGATGCTCTTTATGAAAGGAAACAAACAGGAAGCAAAATGTGGATTCAGCAAAC
AAATTCTGGAAATACTAAATAGTACTGGTGGTGAATATGAAACATTCGATATATTGGAAGATGAAGGAGTTCGGCAAGGA
TTAAAAGATTACTCAAATTGGCCAACATATCCTCAGCTGTATGTGAAAGGGGAGCTGGTGGGAGGATTGGATATTGTGAA
GGAGCTGAAAGAAAATGGTGAATTGCTGCCTATACTGAGAGGAGAAAAT

Alignment

ORF - retro_ggor_2308 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.6 %
• Parental protein coverage: 60.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LNLRLKKLTHAAPCMLFMKGTPQEPRCGFSKQMVEILHKHNIQFSSFDIFSDEEVRQGLKAYSNWPTYPQ
          LNLRL.KLTHAAPC.LFMKGTPQEP.CGFSKQMVEILHKHNI.FSSFD.FSD.EVRQGLKAYSNWPTYPQ
Retrocopy LNLRLQKLTHAAPCTLFMKGTPQEPLCGFSKQMVEILHKHNI*FSSFDVFSDQEVRQGLKAYSNWPTYPQ

Parental  LYVSGELIGGLDIIKELEASEELDTICPKAPKLEERLKVLTNKASVMLFMKGNKQEAKCGFSKQILEILN
          LYVSGELIGGLD.IKEL.ASEELDTICPKAPKLEERLKVLTN.AS.MLFMKGNKQEAKCGFSKQILEILN
Retrocopy LYVSGELIGGLDVIKELHASEELDTICPKAPKLEERLKVLTNEASMMLFMKGNKQEAKCGFSKQILEILN

Parental  STGVEYETFDILEDEEVRQGLKAYSNWPTYPQLYVKGELVGGLDIVKELKENGELLPILRGEN
          STG.EYETFDILEDE.VRQGLK.YSNWPTYPQLYVKGELVGGLDIVKELKENGELLPILRGEN
Retrocopy STGGEYETFDILEDEGVRQGLKDYSNWPTYPQLYVKGELVGGLDIVKELKENGELLPILRGEN

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	13.52 RPM
SRP007412_cerebellum	0.00 RPM	10.60 RPM
SRP007412_heart	0.03 RPM	7.22 RPM
SRP007412_kidney	0.08 RPM	25.02 RPM
SRP007412_liver	0.00 RPM	13.98 RPM
SRP007412_testis	0.52 RPM	62.99 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_2308 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2308 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pan troglodytes	retro_ptro_2320

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000003257	1 retrocopy	retro_amel_1348,
Bos taurus	ENSBTAG00000005027	1 retrocopy	retro_btau_659,
Canis familiaris	ENSCAFG00000013280	1 retrocopy	retro_cfam_285,
Callithrix jacchus	ENSCJAG00000014400	1 retrocopy	retro_cjac_158,
Dasypus novemcinctus	ENSDNOG00000010387	1 retrocopy	retro_dnov_2110,
Gorilla gorilla	ENSGGOG00000010771	1 retrocopy	retro_ggor_2308 ,
Microcebus murinus	ENSMICG00000008544	2 retrocopies	retro_mmur_1394, retro_mmur_89,
Myotis lucifugus	ENSMLUG00000005483	1 retrocopy	retro_mluc_377,
Mus musculus	ENSMUSG00000031068	1 retrocopy	retro_mmus_2480,
Nomascus leucogenys	ENSNLEG00000027088	2 retrocopies	retro_nleu_2322, retro_nleu_249,
Ochotona princeps	ENSOPRG00000017309	1 retrocopy	retro_opri_462,
Pongo abelii	ENSPPYG00000002768	1 retrocopy	retro_pabe_2830,
Pan troglodytes	ENSPTRG00000003060	1 retrocopy	retro_ptro_2320,