RetrogeneDB ID: retro_ggor_2094

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 4:62143011..62143516(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: OBFC2B
• Ensembl ID: ENSGGOG00000009050
• Aliases: None
• Description: None

Sequence

>retro_ggor_2094
AGACAGGCCAAGACAAAGGAGGGGCAAAAGGTTTGGACCTGCAAAGTGGCGGACAAAATGGGCAGCCTCAATATCTCCGT
CTGTGATGACATCGGCAATCTGATCCAGCCTGGGGACGTTGTCTGGCTCAACAAAGGGTACGCTTCAGTTTTCAAAGGTT
GTCTGACACAGTATACTGGCCATGGGGGTGATCTACAGAAGACTGGAGAATTCTGTATGGTTTATTCTGATTTCCTAACT
TCAATGAGCCCAACTCAGAGTATAGCAACCAGCAGGCGCCCAACAAGGTGGTGCAGAACAACAGCAACCCTACAGCTTCC
CAGCCTACCACTTGTCCCCCTGCTGCTTCTCCAGCCTCGAAAGCCAGAATGGGAATGGATCTAGTAACCCACCAAGGTCC
TGGTAGTGGCCCACATCCCCCTCATAGTCCGTCCCACCCCCCAGTACCAGAACCCCTCGAAGCCACGCCAACCACACACC
TGCAGGCCCACCTGGCCCTTCAGCC

Alignment

ORF - retro_ggor_2094 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.3 %
• Parental protein coverage: 80.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  RVTKTKDGHEVRTCKVADKTGSINISVWDDVGNLIQPGDIIRLTKGYASVFKGCLTLYTGRGGDLQKIGE
          R..KTK.G..V.TCKVADK.GS.NISV.DD.GNLIQPGD...L.KGYASVFKGCLT.YTG.GGDLQK.GE
Retrocopy RQAKTKEGQKVWTCKVADKMGSLNISVCDDIGNLIQPGDVVWLNKGYASVFKGCLTQYTGHGGDLQKTGE

Parental  FCMVYSE-VPNFSEPNPEYSTQQAPNKAVQNDSNPSASQPTTGPSAASPAS-ENQNGNGLSAPP-GPGGG
          FCMVYS...PNF.EPN.EYS.QQAPNK.VQN.SNP.ASQPTT.P.AASPAS.E.QNGNG.S.PP.GPG.G
Retrocopy FCMVYSD<FPNFNEPNSEYSNQQAPNKVVQNNSNPTASQPTTCPPAASPAS<ESQNGNGSSNPP>GPGSG

Parental  PHPPHTPSH-PPSTRITRSQPNHTPAGPPGPSS
          PHPPH.PSH.PPSTR..RS..NHTPAGPPGPS.
Retrocopy PHPPHSPSH<PPSTRTPRSHANHTPAGPPGPSA

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	0.05 RPM	37.26 RPM
SRP007412_cerebellum	0.00 RPM	23.64 RPM
SRP007412_heart	0.00 RPM	4.03 RPM
SRP007412_kidney	0.00 RPM	13.62 RPM
SRP007412_liver	0.00 RPM	5.09 RPM
SRP007412_testis	0.00 RPM	15.33 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_2094 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2094 has 0 orthologous retrocopies within eutheria group .

---

Parental genes homology:

Parental genes homology involve 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002798	1 retrocopy	retro_btau_545,
Callithrix jacchus	ENSCJAG00000011455	1 retrocopy	retro_cjac_1961,
Dasypus novemcinctus	ENSDNOG00000013517	1 retrocopy	retro_dnov_1189,
Erinaceus europaeus	ENSEEUG00000001325	1 retrocopy	retro_eeur_1,
Gorilla gorilla	ENSGGOG00000009050	1 retrocopy	retro_ggor_2094 ,
Macropus eugenii	ENSMEUG00000004485	4 retrocopies	retro_meug_1118, retro_meug_123, retro_meug_1835, retro_meug_540,
Mustela putorius furo	ENSMPUG00000001297	1 retrocopy	retro_mputfur_59,
Sarcophilus harrisii	ENSSHAG00000002240	1 retrocopy	retro_shar_493,