RetrogeneDB ID: retro_ggor_1219

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:70167918..70168254(-)
• Located in intron of: ENSGGOG00000026972

Retrocopy information

• Ensembl ID: ENSGGOG00000007570
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GABARAPL1
• Ensembl ID: ENSGGOG00000022360
• Aliases: None
• Description: None

Sequence

>retro_ggor_1219
ATGAAGTTCCAGTACAAGGAGGTCCATCCCTTTGAGTATCGGAAAAAGGAAGGAGAAAAGATCCGGAAGAAATATCCGGG
CAGGGTCCCCTTGATTGTAGAGAAGGCTCCAAAAGCAAGGGTGCCTGATCTGGACAAGAGGAAGTACCTAGTGCCCTCCG
ACCTTACCGATGGCCAGTTCTACTTTTTAATCCGGAAGAGAATCCACCTGAGACCTGAGGACGCCTTATTCTTCTTTGTC
AACAACACTATCCCTCCCACTAGTGCTACCATGGGCCAACTATATGAGGACAGTCATGAGGAAGATGATTTTCTGTATGT
GGCCTACAGTAATGAG

Alignment

ORF - retro_ggor_1219 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.75 %
• Parental protein coverage: 95.73 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKFQYKEDHPFEYRKKEGEKIRKKYPDRVPVIVEKAPKARVPDLDKRKYLVPSDLTVGQFYFLIRKRIHL
          MKFQYKE.HPFEYRKKEGEKIRKKYP.RVP.IVEKAPKARVPDLDKRKYLVPSDLT.GQFYFLIRKRIHL
Retrocopy MKFQYKEVHPFEYRKKEGEKIRKKYPGRVPLIVEKAPKARVPDLDKRKYLVPSDLTDGQFYFLIRKRIHL

Parental  RPEDALFFFVNNTIPPTSATMGQLYEDNHEEDYFLYVAYSDE
          RPEDALFFFVNNTIPPTSATMGQLYED.HEED.FLYVAYS.E
Retrocopy RPEDALFFFVNNTIPPTSATMGQLYEDSHEEDDFLYVAYSNE

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	0.29 RPM	498.58 RPM
SRP007412_cerebellum	0.28 RPM	222.28 RPM
SRP007412_heart	0.16 RPM	107.07 RPM
SRP007412_kidney	0.04 RPM	204.69 RPM
SRP007412_liver	0.21 RPM	118.23 RPM
SRP007412_testis	0.10 RPM	108.16 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_1219 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1219 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000014832	1 retrocopy	retro_ecab_673,
Homo sapiens	ENSG00000139112	1 retrocopy	retro_hsap_60,
Gorilla gorilla	ENSGGOG00000012299	2 retrocopies	retro_ggor_2761, retro_ggor_342,
Gorilla gorilla	ENSGGOG00000013770	1 retrocopy	retro_ggor_821,
Gorilla gorilla	ENSGGOG00000022360	1 retrocopy	retro_ggor_1219 ,
Macropus eugenii	ENSMEUG00000002873	3 retrocopies	retro_meug_1584, retro_meug_1840, retro_meug_905,
Sarcophilus harrisii	ENSSHAG00000007434	1 retrocopy	retro_shar_82,
Ictidomys tridecemlineatus	ENSSTOG00000002246	1 retrocopy	retro_itri_391,