RetrogeneDB ID: retro_ggor_2691

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:125835392..125836524(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024602
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ENSG00000103550
• Ensembl ID: ENSGGOG00000005673
• Aliases: None
• Description: None

Sequence

>retro_ggor_2691
ATGATCACCAAGACATACAAAGTAGACCTGGGCCCTGGGCTCCCAGAGAAGAAAAAGAAGAAGAAAGTGGTCAAAGAACC
AGAGACTCAATATTCAATTTTAAACAATGATGATTACTTTGCCAGTGTTTCTCCTATAAGAGCCACATCCCCCTCTAAGA
GTGTAGTCCATAGGCAGGCACCTGAGATGTCTCTAGTGAAGAAAAAGAAGGGTGTCAGCACCCTTTGCGAGGAGCATGTG
GAACCCGAGACCACGCTGTGTGCCAGACAGACAGAGAAGTCACCCAGCCCCAGGAAGCAGGTGCTTGGCCACTTGAAGTT
CCTCAGTGGGGAGAAGAAAAAGAAGTCACCTCAGGCTATGTCCCATGCCTCCAGGGTGAAAACCTCCTCAGACCTCAGAC
ATAGTGAGGAGGAAACCAGAGTCGGAAAGAAACTCAAAAAACACAAGAAGGCAAAAAATAGGGGGCCCAGGACCCCACAG
CCTTCTCAGTCCAGGAACCTTGGTTCTGCAAGGCTGGGATGCTGCGGACACTTGCTCAGTGGGGAAGGAGGGTGAGGAAC
AGGCAACCTTGGGGAAGAAACAGAAGCAGAAGAGCCCCAGGGAACACAGTGGGAAGGTGAAGAAGAAAAAAAAAATTCCA
CCAGGAGGGAGACCTCCTCCCAAGCCACTCCAAGCCCTCCAGGTCCTTGGAGAGCAGCCCCCATAAAGGAAGTAAAACTA
AACCAGTCAAAGTTGAGGTTCTGGAATATATCCCCATAGGAGATGGCCCTAAGGCCCCCGCGAAGAAAAAGATGAAGTCC
AAGAAAAAGGTCACCGAGGAGCCGGCTCTGAAAAGGAAGAAAAAAATAAGAGGAAAGAGAGTGGGGTAGCAGGAGACCCT
TGGAAGGAGGAAACAGACATGGACTTAGAGGTGGTGTTGGAAAGGAAAGGCAATATGGACGAGGCGCACATAGACCAGGT
GAGGCGAAAGTTCTTGCAAGAAGAGGTCCATCAGGAGTCAAGCAAAACGGAAGCTTCTGAAACCTGGAAGTGGACGGGAA
CCCAGTTTGGCCAGTGGGATACTGCTGGTTTTGAGAACGAGGAACAGAAACTGAAATTTCTCAATCTTATGGGTGGCTTC
AAAAATCTGTCC

Alignment

ORF - retro_ggor_2691 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.38 %
• Parental protein coverage: 84.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MITKTHKVD--PGLPEKKKKKKVVKEPETRYSVLNNDDYFADVSPLKATSPSKSVAQGQPPEMPLVKKKK
          MITKT.KVD..PGLPEKKKKKKVVKEPET.YS.LNNDDYFA.VSP..ATSPSKSV...Q.PEM.LVKKKK
Retrocopy MITKTYKVDLGPGLPEKKKKKKVVKEPETQYSILNNDDYFASVSPIRATSPSKSVVHRQAPEMSLVKKKK

Parental  KKKKGVSTLCEEHVEPETTLPARRTEKSPSLRKQVLGHLEFLGGEKKNKKSPLAMSHASGVKTSPDPRQG
          ....GVSTLCEEHVEPETTL.AR.TEKSPS.RKQVLGHL.FL.GEKK.KKSP.AMSHAS.VKTS.D.R..
Retrocopy ----GVSTLCEEHVEPETTLCARQTEKSPSPRKQVLGHLKFLSGEKK-KKSPQAMSHASRVKTSSDLRHS

Parental  EEETRVGKKLKKHKKEK-KG-AQDPTAFSVQDPWFCEAREARDVGDACSVGKKDEEQAALGQKR-KRKSP
          EEETRVGKKLKKHKK.K..G.AQDPTAFSVQ.PWFC.A...R........G.........G..R.K.KSP
Retrocopy EEETRVGKKLKKHKKAKNRG<AQDPTAFSVQEPWFCKAGMLRTL---AQWGRRVRNRQPWGRNR<KQKSP

Parental  REHNGKVKK-KKKIHHEGDALPGHSKPSRSMESSPRKGSKKKPVKVEAPEYIPVSDDPKASAKKKMKSKK
          REH.GKVKK.....H.EGD.LP.HSKPSRS.ESSP.KGSK.KPVKVE..EYIP..D.PKA.AKKKMKSKK
Retrocopy REHSGKVKK>XXXFHQEGDLLPSHSKPSRSLESSPHKGSKTKPVKVEVLEYIPIGDGPKAPAKKKMKSKK

Parental  KVEQPVIEEPALKRKK-KKTTKESGVAGDPWKEETDTDLEVVLEKKGNMDEAHIDQVRRKALQEEIDRES
          KV......EPALKRKK.K...KESGVAGDPWKEETD.DLEVVLE.KGNMDEAHIDQVRRK.LQEE...ES
Retrocopy KVTE----EPALKRKK<KNKRKESGVAGDPWKEETDMDLEVVLERKGNMDEAHIDQVRRKFLQEEVHQES

Parental  GKTEASETRKWTGTQFGQWDTAGFENEDQKLKFLRLMGGFKNLS
          .KTEASET.KWTGTQFGQWDTAGFENE.QKLKFL.LMGGFKNLS
Retrocopy SKTEASETWKWTGTQFGQWDTAGFENEEQKLKFLNLMGGFKNLS

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	2.97 RPM
SRP007412_cerebellum	0.00 RPM	2.60 RPM
SRP007412_heart	0.00 RPM	1.78 RPM
SRP007412_kidney	0.12 RPM	3.27 RPM
SRP007412_liver	0.00 RPM	1.64 RPM
SRP007412_testis	0.10 RPM	7.15 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_2691 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2691 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4007
Pongo abelii	retro_pabe_3293

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018032	2 retrocopies	retro_cfam_1557, retro_cfam_1763,
Callithrix jacchus	ENSCJAG00000009625	1 retrocopy	retro_cjac_3199,
Homo sapiens	ENSG00000103550	3 retrocopies	retro_hsap_3487, retro_hsap_4007, retro_hsap_979,
Gorilla gorilla	ENSGGOG00000005673	1 retrocopy	retro_ggor_2691 ,
Macaca mulatta	ENSMMUG00000002707	2 retrocopies	retro_mmul_1771, retro_mmul_798,
Nomascus leucogenys	ENSNLEG00000012496	2 retrocopies	retro_nleu_1618, retro_nleu_551,
Otolemur garnettii	ENSOGAG00000010065	4 retrocopies	retro_ogar_1115, retro_ogar_1480, retro_ogar_1481, retro_ogar_2259,
Pongo abelii	ENSPPYG00000007151	3 retrocopies	retro_pabe_3293, retro_pabe_828, retro_pabe_920,
Pan troglodytes	ENSPTRG00000007836	3 retrocopies	retro_ptro_2360, retro_ptro_767, retro_ptro_924,