RetrogeneDB ID: retro_ggor_1435

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 19:20664628..20665288(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000009341
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ACTR2
• Ensembl ID: ENSGGOG00000008505
• Aliases: None
• Description: None

Sequence

>retro_ggor_1435
CTCCCTCATCTTACCAGGAGACTGGATATTGCTGGGAGGGATATAACTAGATATCTTATCAAGCTACTTCTGTTGCAAGG
ATACACCTTCAACCACTCTGCTGATTTTGAAACGGTTCGCATGATTAAAGAAAAACTGTGTTACGTGGGATATAATATTG
TGCAAGAGCAGAAACTGGCCTTAGAAACCACAGTATTAGTTGAATCTTATACACTCCCAGATGGACGAATCATCAAAGTT
GGGGGAGAGAGATTTGAAACACCAGAAGCTTTATTTCAGCCTCACTTGATCAATGTTGAAGGAGTTGGTGTTGCTGAATT
GCTTTTTAACACAATTCAGGCGGCTGACATTGATACCAGATCTGAATTCTACAAACACATTGTGCTTTCTGGAGGGTCTA
CTATGTATCCTGGCCTGTCATCACGGTTGGAACGAGAACTTAAACAGCTTTACTTAGAAAGAGTTTTGAAGGATGATGTG
GAAAAACTTCCTAAATTTAAGATCTGCATTGAAGACCCATCCCGCAGAAAGCACATGGTATTCTTGGGTGGTGCAGTTCT
AGCGGATATCATGAAAGACAAAGACAATTTTTGGATGACCCGACAGGAGTACCAAGAAAAGGGTGTCCTTGTGCTAGAGA
AACTTGGTGTGACTGTTCGA

Alignment

ORF - retro_ggor_1435 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.73 %
• Parental protein coverage: 55.56 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LSYLVELIQMYYELIAIVLYQLLLLRGYAFNHSADFETVRMIKEKLCYVGYNIEQEQKLALETTVLVESY
          L..L..........I...L..LLLL.GY.FNHSADFETVRMIKEKLCYVGYNI.QEQKLALETTVLVESY
Retrocopy LPHLTRRLDIAGRDITRYLIKLLLLQGYTFNHSADFETVRMIKEKLCYVGYNIVQEQKLALETTVLVESY

Parental  TLPDGRIIKVGGERFEAPEALFQPHLINVEGVGVAELLFNTIQAADIDTRSEFYKHIVLSGGSTMYPGLP
          TLPDGRIIKVGGERFE.PEALFQPHLINVEGVGVAELLFNTIQAADIDTRSEFYKHIVLSGGSTMYPGL.
Retrocopy TLPDGRIIKVGGERFETPEALFQPHLINVEGVGVAELLFNTIQAADIDTRSEFYKHIVLSGGSTMYPGLS

Parental  SRLERELKQLYLERVLKGDVEKLSKFKIRIEDPPRRKHMVFLGGAVLADIMKDKDNFWMTRQEYQEKGVR
          SRLERELKQLYLERVLK.DVEKL.KFKI.IEDP.RRKHMVFLGGAVLADIMKDKDNFWMTRQEYQEKGV.
Retrocopy SRLERELKQLYLERVLKDDVEKLPKFKICIEDPSRRKHMVFLGGAVLADIMKDKDNFWMTRQEYQEKGVL

Parental  VLEKLGVTVR
          VLEKLGVTVR
Retrocopy VLEKLGVTVR

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	6.52 RPM	148.27 RPM
SRP007412_cerebellum	2.32 RPM	58.78 RPM
SRP007412_heart	0.41 RPM	13.45 RPM
SRP007412_kidney	1.59 RPM	45.71 RPM
SRP007412_liver	1.21 RPM	23.08 RPM
SRP007412_testis	2.07 RPM	57.71 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_1435 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1435 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009761	1 retrocopy	retro_btau_707,
Callithrix jacchus	ENSCJAG00000006722	1 retrocopy	retro_cjac_429,
Homo sapiens	ENSG00000138071	1 retrocopy	retro_hsap_1978,
Gorilla gorilla	ENSGGOG00000008505	1 retrocopy	retro_ggor_1435 ,
Monodelphis domestica	ENSMODG00000003364	2 retrocopies	retro_mdom_1082, retro_mdom_754,
Mus musculus	ENSMUSG00000020152	1 retrocopy	retro_mmus_2989,
Pongo abelii	ENSPPYG00000012359	1 retrocopy	retro_pabe_1877,
Pan troglodytes	ENSPTRG00000011990	1 retrocopy	retro_ptro_1320,