RetrogeneDB ID: retro_ggor_604

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:105828931..105829669(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000024168
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: EIF2S2
• Ensembl ID: ENSGGOG00000015546
• Aliases: None
• Description: None

Sequence

>retro_ggor_604
GTATTTGATATTGATGAAGCTGAAGAAGGTGTAAAGGATCTTAAGATTGAAAGTGATGTTCAAGAACCAACTGAACCAGA
GAATGACCTTGACATTATGCTTGGCAATAAAAAGAAGAAAAAGAAGAAGGTCAAGTTCCCAGATGAGGATGAAATACTAG
AGAAAGATGAAGTTCTAGAAGAGGAAGACAGCAAAAAAGATGATGGTATCTCATTCAGTAATCAGACAGGCCCTGCTTGG
GCAGGCTCAGAAAGAGACTACACATATGAGGAGCTACTGAATCGAGTGTTCAACATCATGAGGGAAAAGAAGCCAGATAT
GGTTGCTGGGGAGATAAGGAAATTTGTCATGAAACCTCCACAGGTCGTCCGAGTAGGAACCAAGAAAACGTCTTTTGTCA
ACTTTACACATATCTGTAAACTATTACATCATCAGCCCAAACATCTCCGTGCATTTTTGTTGGCTGAATTGGGTACAAAT
GGTTCTATAGATGGTAATAACCAACTTGTAATCAAAGGAAGATTCCAACAGAAACAGACAGAAAATGTCTTGAGAAGATA
TATCAAGGAATATGTCACTTGTCACACGTGCCGATTACTGGACACAATCCTGCAGAAGGACACGCGAATCTATTTCCTAC
AGTGCGAAACTTGTCATTCTAGATGTTCTGTTGCCAGCATCAAAACCGGCTACCAGGCTGTCATGGGCAAGTGAGCACAC
CTCCGTGCCAAAGCTAAC

Alignment

ORF - retro_ggor_604 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.43 %
• Parental protein coverage: 75.93 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IFDIDEAEEGVKDLKIESDVQEPTEPEDDLDIMLGNKKKKKKNVKFPDEDEILEKDEALEDEDNKKDDGI
          .FDIDEAEEGVKDLKIESDVQEPTEPE.DLDIMLGN.......VKFPDEDEILEKDE.LE.ED.KKDDGI
Retrocopy VFDIDEAEEGVKDLKIESDVQEPTEPENDLDIMLGNXXXXXXXVKFPDEDEILEKDEVLEEEDSKKDDGI

Parental  SFSNQTGPAWAGSERDYTYEELLNRVFNIMREKNPDMVAGEKRKFVMKPPQVVRVGTKKTSFVNFTDICK
          SFSNQTGPAWAGSERDYTYEELLNRVFNIMREK.PDMVAGE.RKFVMKPPQVVRVGTKKTSFVNFT.ICK
Retrocopy SFSNQTGPAWAGSERDYTYEELLNRVFNIMREKKPDMVAGEIRKFVMKPPQVVRVGTKKTSFVNFTHICK

Parental  LLHRQPKHLLAFLLAELGTSGSIDGNNQLVIKGRFQQKQIENVLRRYIKEYVTCHTCRSPDTILQKDTRL
          LLH.QPKHL.AFLLAELGT.GSIDGNNQLVIKGRFQQKQ.ENVLRRYIKEYVTCHTCR..DTILQKDTR.
Retrocopy LLHHQPKHLRAFLLAELGTNGSIDGNNQLVIKGRFQQKQTENVLRRYIKEYVTCHTCRLLDTILQKDTRI

Parental  YFLQCETCHSRCSVASIKTGFQAVTGKRAQLRAKAN
          YFLQCETCHSRCSVASIKTG.QAV.GK.A.LRAKAN
Retrocopy YFLQCETCHSRCSVASIKTGYQAVMGK*AHLRAKAN

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	21.34 RPM
SRP007412_cerebellum	0.00 RPM	20.37 RPM
SRP007412_heart	0.03 RPM	8.69 RPM
SRP007412_kidney	0.16 RPM	41.34 RPM
SRP007412_liver	0.18 RPM	25.32 RPM
SRP007412_testis	0.10 RPM	52.63 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_604 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_604 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_713
Pan troglodytes	retro_ptro_508

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018334	2 retrocopies	retro_cjac_4196, retro_cjac_697,
Cavia porcellus	ENSCPOG00000015439	1 retrocopy	retro_cpor_1143,
Echinops telfairi	ENSETEG00000001922	1 retrocopy	retro_etel_1101,
Homo sapiens	ENSG00000125977	3 retrocopies	retro_hsap_2176, retro_hsap_2260, retro_hsap_713,
Gorilla gorilla	ENSGGOG00000015546	5 retrocopies	retro_ggor_1683, retro_ggor_1726, retro_ggor_2007, retro_ggor_280, retro_ggor_604 ,
Microcebus murinus	ENSMICG00000006944	1 retrocopy	retro_mmur_1583,
Macaca mulatta	ENSMMUG00000018095	1 retrocopy	retro_mmul_1483,
Monodelphis domestica	ENSMODG00000002805	5 retrocopies	retro_mdom_1981, retro_mdom_365, retro_mdom_368, retro_mdom_370, retro_mdom_837,
Nomascus leucogenys	ENSNLEG00000010034	2 retrocopies	retro_nleu_2242, retro_nleu_466,
Otolemur garnettii	ENSOGAG00000001417	1 retrocopy	retro_ogar_196,
Pongo abelii	ENSPPYG00000010933	2 retrocopies	retro_pabe_1955, retro_pabe_2421,
Pan troglodytes	ENSPTRG00000013412	2 retrocopies	retro_ptro_1600, retro_ptro_508,
Rattus norvegicus	ENSRNOG00000017447	1 retrocopy	retro_rnor_2395,