RetrogeneDB ID: retro_ggor_1691

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2a:66737474..66738091(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000027215
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DNAJB12
• Ensembl ID: ENSGGOG00000000683
• Aliases: None
• Description: None

Sequence

>retro_ggor_1691
AAGCAGTATGACCACTTGGGCGATAACAGGAGCCAGGCAGTCAGGTCCGGCATCGTCATGGGGACTTCCACCACGGCTTT
GAGGCTGACATCTCCCCTGAAGACCTCTTCAACATGTTCTTTGGCAATGGCTTCCCTTCTAGTAAAGTCTACGTCTACAG
CAATGGCTGCATGCGCTATACCTACCAGCAAAGGCAGGGCCGCAGGGAGAAGCGGAGTGACGGCAGCTGGGGGGTGTTTG
TGCAGCTGATGCCCATCCTCATCCTCACGTCAGCTCTCAGCCAGCTCATGGTCTCCAGTCCACCCTACAGTCTGAGCCCA
AGACTGTTTGTGGGCCACATCACAGGCGAGTCACTGACCACCTGAGTGTCATCTACTATGTGGCAGGCACTTTCTCTGAG
GAGTACACAGGCTCCAGCCTCCAAACAGTCAAACCGAATGTGAAAGATGATTATATCGCCAACCTCTGGAACAACTGCTG
GACGGAGAAGCAGCAGACGAAAGGCTTGCTGTACCGAGGCCGCTACTTTGGTGACACAGATACGTACCACAAAGCACAGA
AGATGGGCAGCCCCCTGCTGCAGCCAGCTGTCACAGGATCAGGCCTCCCTGCATGGA

Alignment

ORF - retro_ggor_1691 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.2 %
• Parental protein coverage: 50.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KQYDQFGDDKSQAARHG-HGHGDFHRGFEADISPEDLFNMFFGGGFPSSNVHVYSNGRMRYTYQQRQDRR
          KQYD..GD..SQA.R.G.H.HGDFH.GFEADISPEDLFNMFFG.GFPSS.V.VYSNG.MRYTYQQRQ.RR
Retrocopy KQYDHLGDNRSQAVRSG<HRHGDFHHGFEADISPEDLFNMFFGNGFPSSKVYVYSNGCMRYTYQQRQGRR

Parental  DNQGDGGLGVFVQLMPILILILVSALSQLMVSSPPYSLSPRPSVGHI-HRRVTDHLGVVYYVGDTFSEEY
          ....DG..GVFVQLMPILIL...SALSQLMVSSPPYSLSPR..VGHI.HRRVTDHL.V.YYV..TFSEEY
Retrocopy EKRSDGSWGVFVQLMPILIL--TSALSQLMVSSPPYSLSPRLFVGHI<HRRVTDHLSVIYYVAGTFSEEY

Parental  TGSSLKTVERNVEDDYIANLRNNCWKEKQQKEGLLYRARYFGDTDMYHKAQKMGT-PSCSRLSEVQASLH
          TGSSL.TV..NV.DDYIANL.NNCW.EKQQ..GLLYR.RYFGDTD.YHKAQKMG..P.CS.LS..QASLH
Retrocopy TGSSLQTVKPNVKDDYIANLWNNCWTEKQQTKGLLYRGRYFGDTDTYHKAQKMGS>PCCSQLSQDQASLH

Parental  G
          G
Retrocopy G

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	0.14 RPM	25.08 RPM
SRP007412_cerebellum	0.16 RPM	34.51 RPM
SRP007412_heart	0.06 RPM	13.48 RPM
SRP007412_kidney	0.12 RPM	35.74 RPM
SRP007412_liver	0.26 RPM	21.84 RPM
SRP007412_testis	0.00 RPM	55.01 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_1691 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1691 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2273
Pan troglodytes	retro_ptro_1608
Pongo abelii	retro_pabe_1945
Callithrix jacchus	retro_cjac_1200

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007303	1 retrocopy	retro_cjac_1200,
Dasypus novemcinctus	ENSDNOG00000009977	1 retrocopy	retro_dnov_866,
Homo sapiens	ENSG00000148719	1 retrocopy	retro_hsap_2273,
Gorilla gorilla	ENSGGOG00000000683	1 retrocopy	retro_ggor_1691 ,
Macropus eugenii	ENSMEUG00000002024	2 retrocopies	retro_meug_1115, retro_meug_1511,
Pongo abelii	ENSPPYG00000002353	1 retrocopy	retro_pabe_1945,
Pan troglodytes	ENSPTRG00000002613	1 retrocopy	retro_ptro_1608,