RetrogeneDB ID: retro_ggor_1800

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2b:90699547..90700051(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000007480
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DAZAP2
• Ensembl ID: ENSGGOG00000026861
• Aliases: None
• Description: None

Sequence

>retro_ggor_1800
ATGAACAGCAAAGGTCAATATCCAACACAGCCAACCTAGCCTGTGCAGCCTCCTGGGAATCCAGTATACCCTCAGACCTT
GCATCTTTCTCAGGCTGTACCCTATACTGATGCTCCGACTGCCTACTCAGAGCTCTATCATCCAAGCTTTGTGCACCCAG
GGGCTGCCACAGTCCCCACCATGTCAGCCGCATTTCCTGGAGCCTCTCTGTATCTTCCCATGGCCCAGTCTGTGGCTGTT
GGGTCTTTAAGTTCCACAATCCCCATGGCTTATTATCCAGTTGGTCCCATCTATCCACCTGGCTCCACAGTGCTGGTGGA
AGGAGGGTATGATGCAGGTGCCAGATTTGGAGCTGGGGCTACTGCTGGCAACATTCTTCCTCCACCTCCTGGATGCCCTC
CCAGTGCTGCTCAGCTTGCAGTCATGCAGGGAGCCAACGTCGTCGTAACTCAGTGGAAGGGGAACTTCTTCATGGGTGAA
TCAGATGGTGGCTACACCATCTGG

Alignment

ORF - retro_ggor_1800 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.86 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNSKGQYPTQPTYPVQPPGNPVYPQTLHLPQAPPYTDAPPAYSELYRPSFVHPGAATVPTMSAAFPGASL
          MNSKGQYPTQPT.PVQPPGNPVYPQTLHL.QA.PYTDAP.AYSELY.PSFVHPGAATVPTMSAAFPGASL
Retrocopy MNSKGQYPTQPT*PVQPPGNPVYPQTLHLSQAVPYTDAPTAYSELYHPSFVHPGAATVPTMSAAFPGASL

Parental  YLPMAQSVAVGPLGSTIPMAYYPVGPIYPPGSTVLVEGGYDAGARFGAGATAGNIPPPPPGCPPNAAQLA
          YLPMAQSVAVG.L.STIPMAYYPVGPIYPPGSTVLVEGGYDAGARFGAGATAGNI.PPPPGCPP.AAQLA
Retrocopy YLPMAQSVAVGSLSSTIPMAYYPVGPIYPPGSTVLVEGGYDAGARFGAGATAGNILPPPPGCPPSAAQLA

Parental  VMQGANVLVTQRKGNFFMGGSDGGYTIW
          VMQGANV.VTQ.KGNFFMG.SDGGYTIW
Retrocopy VMQGANVVVTQWKGNFFMGESDGGYTIW

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	103.48 RPM
SRP007412_cerebellum	0.12 RPM	94.95 RPM
SRP007412_heart	0.00 RPM	32.05 RPM
SRP007412_kidney	0.00 RPM	216.42 RPM
SRP007412_liver	0.03 RPM	112.69 RPM
SRP007412_testis	0.83 RPM	107.12 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_1800 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1800 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2370
Pongo abelii	retro_pabe_2140
Macaca mulatta	retro_mmul_958

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017661	2 retrocopies	retro_cjac_636, retro_cjac_793,
Homo sapiens	ENSG00000183283	1 retrocopy	retro_hsap_2370,
Gorilla gorilla	ENSGGOG00000026861	1 retrocopy	retro_ggor_1800 ,
Myotis lucifugus	ENSMLUG00000009959	1 retrocopy	retro_mluc_351,
Macaca mulatta	ENSMMUG00000001884	1 retrocopy	retro_mmul_958,
Nomascus leucogenys	ENSNLEG00000017776	1 retrocopy	retro_nleu_360,
Otolemur garnettii	ENSOGAG00000007977	3 retrocopies	retro_ogar_2109, retro_ogar_2139, retro_ogar_3130,
Pongo abelii	ENSPPYG00000004524	1 retrocopy	retro_pabe_2140,