RetrogeneDB ID: retro_ggor_1165

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:70097018..70097435(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PERP
• Ensembl ID: ENSGGOG00000028340
• Aliases: None
• Description: None

Sequence

>retro_ggor_1165
GGCGGCAGCGGGTCCTAAGAGGAAGGCTGCCACAGCCTCATGGAGTACGCGTGGGGTCGAGCAGCGGCTGCCATGCTTTT
CTGGGGCGTCAGCATCCTGGTGATCTGTTTCATCCTCTCCTTCTTCTTCGTCCTGTGTGTACCCCAGATACATGTCTTCC
TAAGAGTGATTGGAGGTCTCCTTGCCTTGGCTGCTGTGTTCCAGATCATCTCCCTGGTAATTTACCCCGTGAAGTACACT
CAACCTTCAACCTTCATGCCAAGCCCCGCTGTCACTTCCATCTATAACTGGGCCTACGGCTTTGGGTGGGCAGCCATGAT
TATCCTCATTGGCTGTGCTTTCTTCTGCTGCTGCCTCCCCAGCTACGAAGATGACCTCCTGGGCAATACCAAGCCCAGGT
ACTTCTACACATCCGCC

Alignment

ORF - retro_ggor_1165 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.52 %
• Parental protein coverage: 71.5 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GGSGSYEEGCQSLMEYAWGRAAAAMLFCGFIILVICFILSFF-ALCGPQMLVFLRVIGGLLALAAVFQII
          GGSGS.EEGC.SLMEYAWGRAAAAMLF.G..ILVICFILSFF..LC.PQ..VFLRVIGGLLALAAVFQII
Retrocopy GGSGS*EEGCHSLMEYAWGRAAAAMLFWGVSILVICFILSFFFVLCVPQIHVFLRVIGGLLALAAVFQII

Parental  SLVIYPVKYTQ-TFALHA-NPAVTYIYNWAYGFGWAATIILIGCAFFFCCLPNYEDDLLGNAKPRYFYTS
          SLVIYPVKYTQ.TF.LHA..PAVT.IYNWAYGFGWAA.IILIGCAFF.CCLP.YEDDLLGN.KPRYFYTS
Retrocopy SLVIYPVKYTQ<TFNLHA>SPAVTSIYNWAYGFGWAAMIILIGCAFFCCCLPSYEDDLLGNTKPRYFYTS

Parental  A
          A
Retrocopy A

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	7.15 RPM	1.49 RPM
SRP007412_cerebellum	4.69 RPM	3.35 RPM
SRP007412_heart	0.81 RPM	13.76 RPM
SRP007412_kidney	1.55 RPM	18.11 RPM
SRP007412_liver	0.95 RPM	52.07 RPM
SRP007412_testis	1.76 RPM	4.04 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_1165 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1165 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1523
Pongo abelii	retro_pabe_1267
Macaca mulatta	retro_mmul_2156

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000020097	1 retrocopy	retro_btau_165,
Callithrix jacchus	ENSCJAG00000019024	1 retrocopy	retro_cjac_3992,
Homo sapiens	ENSG00000112378	2 retrocopies	retro_hsap_1523, retro_hsap_2901,
Gorilla gorilla	ENSGGOG00000028340	1 retrocopy	retro_ggor_1165 ,
Macropus eugenii	ENSMEUG00000004872	1 retrocopy	retro_meug_845,
Microcebus murinus	ENSMICG00000013979	1 retrocopy	retro_mmur_353,
Myotis lucifugus	ENSMLUG00000001473	1 retrocopy	retro_mluc_2287,
Macaca mulatta	ENSMMUG00000000997	1 retrocopy	retro_mmul_2156,
Nomascus leucogenys	ENSNLEG00000014930	2 retrocopies	retro_nleu_1934, retro_nleu_631,
Oryctolagus cuniculus	ENSOCUG00000004238	1 retrocopy	retro_ocun_170,
Otolemur garnettii	ENSOGAG00000011669	1 retrocopy	retro_ogar_631,
Pongo abelii	ENSPPYG00000017043	3 retrocopies	retro_pabe_1267, retro_pabe_2400, retro_pabe_2416,