RetrogeneDB ID: retro_ggor_22

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 2b:18384739..18385321(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025374
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: RHOJ
• Ensembl ID: ENSGGOG00000007948
• Aliases: None
• Description: None

Sequence

>retro_ggor_22
ATGGCTCACGGGCCCGGCGCGCTGATGCTCAAGTGCGTGGTGGTCGGCGACGGGGCGGTGGGCAAGACGTGCCCACTCAT
GAGCTATGCCAACGAAGCCTTCCCGGAGGAGTACGTGCCCACGGTCTTCGACCACTACGCAGTCAGCGTCACCGTGGGGG
GCAAGCAGTACCTCCTAGGACTCTATGACACGGCCGGACAGGAAGACTATGACTGTCTGAGGCCTTTATCTTACCCAGTG
ACCGACGTCTTCCTTATATGCTTCTCGGTGGTAAATCCAGCCTCATTTCAAAATGTGAAAGAGGCGTGGGTACCGGAACT
TAAGGAATACGCACCAAATGTACCCTTTTTATTAATAGGAACTCAGATTGATCTCCGAGATGACCCCAAAACTTTAGCAA
GACTGAATGATATGAAAGAAAAACCTATATGTGTGGAACAAGGACAGAAACTAGCAAAAGAGATAGGAGCATGCTGCTAT
CTGGAATGTTCAGCTTTCATTCGGAAGGGATTGAAGACTGTTTTTGATGAGGCTATCATAGCCATTTTAACTCCAAAGAA
ACACACTTTAAAAAAAGAATAG

Alignment

ORF - retro_ggor_22 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.01 %
• Parental protein coverage: 83.64 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVTVTVGGKQHLLGLYDTAGQEDYNQLRPLSY
          MLKCVVVGDGAVGKTC.LMSYAN.AFPEEYVPTVFDHYAV.VTVGGKQ.LLGLYDTAGQEDY..LRPLSY
Retrocopy MLKCVVVGDGAVGKTCPLMSYANEAFPEEYVPTVFDHYAVSVTVGGKQYLLGLYDTAGQEDYDCLRPLSY

Parental  PNTDVFLICFSVVNPASYHNVQEEWVPELKDCMPHVPYVLIGTQIDLRDDPKTLARLLYMKEKPLTYEHG
          P.TDVFLICFSVVNPAS..NV.E.WVPELK...P.VP..LIGTQIDLRDDPKTLARL..MKEKP...E.G
Retrocopy PVTDVFLICFSVVNPASFQNVKEAWVPELKEYAPNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQG

Parental  VKLAKAIGAQCYLECSALTQKGLKAVFDEAILTIFHPKK
          .KLAK.IGA.CYLECSA...KGLK.VFDEAI..I..PKK
Retrocopy QKLAKEIGACCYLECSAFIRKGLKTVFDEAIIAILTPKK

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	1.29 RPM	4.12 RPM
SRP007412_cerebellum	0.28 RPM	3.15 RPM
SRP007412_heart	3.25 RPM	8.82 RPM
SRP007412_kidney	0.57 RPM	6.91 RPM
SRP007412_liver	0.29 RPM	10.34 RPM
SRP007412_testis	0.31 RPM	7.67 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_22 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_22 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2316

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000001761	2 retrocopies	retro_dnov_192, retro_dnov_927,
Gorilla gorilla	ENSGGOG00000007948	1 retrocopy	retro_ggor_22 ,
Gorilla gorilla	ENSGGOG00000010612	2 retrocopies	retro_ggor_1403, retro_ggor_188,
Gorilla gorilla	ENSGGOG00000024439	5 retrocopies	retro_ggor_1932, retro_ggor_2057, retro_ggor_2303, retro_ggor_2593, retro_ggor_2695,
Gorilla gorilla	ENSGGOG00000026733	2 retrocopies	retro_ggor_2110, retro_ggor_217,
Pan troglodytes	ENSPTRG00000006424	4 retrocopies	retro_ptro_1643, retro_ptro_2091, retro_ptro_2971, retro_ptro_910,
Vicugna pacos	ENSVPAG00000004859	2 retrocopies	retro_vpac_574, retro_vpac_588,