RetrogeneDB ID: retro_ggor_3012

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:50058684..50059170(-)
• Located in intron of: ENSGGOG00000000915

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSPB1
• Ensembl ID: ENSGGOG00000002700
• Aliases: None
• Description: None

Sequence

>retro_ggor_3012
CCTTCGGGCTGGTCGCAGTGGTTCGGCACTAGCGGCTGGCCCGGCTACGTGCGTCCCCTGCCCCCGCCGCGGTCGAGAGC
CCCGCGGTGGCCGCGCCCGCCTACAGCTACGCGCTCAGCCGGCAGCTCAGCAGCGGGGTCTCGGAGAATCGGCCCACAGC
GGACCGCTGGCGCGTATCCCTGGACATCAACTACTTCGCCTCCGACGAGCTGACGGTCAAGACCAAGGATGGCATGGTGG
AGATCACCAGCAAGCACGAGGAGCGGCAGGACGAGCATGGCTACATCTCCCGATGCTTCACCCGGAAATACACGCTGTCC
CCCGGTGTGGACCCCACCAAGGTCTCCTCCTCCCTGTCCCCTGAGGGCACACTGACCGTGGAGGCCCCCATGCCCAAGCT
AGCCACAGTCCAACGAGATCACCTTGAAGTCACGGGCCCAGCTTGGGGGCCTAGGAGCTGCGAAATCCGACCAGTCTGCA
GCCAAG

Alignment

ORF - retro_ggor_3012 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.88 %
• Parental protein coverage: 81.46 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  PEEWSQWLGGSSWPGYVRPLPP-AAIESPAVAAPAYSRALSRQLSSGVSEIRHTADRWRVSLDVNHFAPD
          P..WSQW.G.S.WPGYVRPLPP.AA.ESPAVAAPAYS.ALSRQLSSGVSE.R.TADRWRVSLD.N.FA.D
Retrocopy PSGWSQWFGTSGWPGYVRPLPP<AAVESPAVAAPAYSYALSRQLSSGVSENRPTADRWRVSLDINYFASD

Parental  ELTVKTKDGVVEITGKHEERQDEHGYISRCFTRKYTLPPGVDPTQVSSSLSPEGTLTVEA-PMPKLATQS
          ELTVKTKDG.VEIT.KHEERQDEHGYISRCFTRKYTL.PGVDPT.VSSSLSPEGTLTVEA.P.P....QS
Retrocopy ELTVKTKDGMVEITSKHEERQDEHGYISRCFTRKYTLSPGVDPTKVSSSLSPEGTLTVEA>PCPS*P-QS

Parental  NEITIPVTFESRAQLGGPEAAKSDETAAK
          NE.....T..SRAQLGG..AAKSD..AAK
Retrocopy NE----ITLKSRAQLGGLGAAKSDQSAAK

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	0.10 RPM	58.46 RPM
SRP007412_cerebellum	0.20 RPM	30.85 RPM
SRP007412_heart	0.22 RPM	634.96 RPM
SRP007412_kidney	0.00 RPM	83.13 RPM
SRP007412_liver	0.00 RPM	46.06 RPM
SRP007412_testis	0.00 RPM	14.30 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_3012 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_3012 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4830
Pongo abelii	retro_pabe_3755

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000016303	5 retrocopies	retro_cjac_1914, retro_cjac_2499, retro_cjac_396, retro_cjac_412, retro_cjac_591,
Homo sapiens	ENSG00000106211	1 retrocopy	retro_hsap_4830,
Gorilla gorilla	ENSGGOG00000002700	1 retrocopy	retro_ggor_3012 ,
Mus musculus	ENSMUSG00000004951	1 retrocopy	retro_mmus_1097,
Pongo abelii	ENSPPYG00000029733	1 retrocopy	retro_pabe_3755,