RetrogeneDB ID: retro_ggor_78

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:43901703..43902192(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025434
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSGGOG00000025403
• Aliases: None
• Description: None

Sequence

>retro_ggor_78
ATGTTCATCTGGAATCTGATATCCACCTGGGGCCTTGTAATTACCTGGGTTCTGGGCATCCACCTAGGGCTTGAGTATCC
TCCTGGGGCCTTGAGTTTTACTAGGGACTCATGTCTGCCTTGGACCTGGGTGTACATCTGTTGCCTAATGTACACCTTGA
GAGTGATGTCATCCTGGGGACAGATGTCCTCTTGGGGTCTGAGTGTGCACCTGGTGCCTGACGTCTGCCTAGGGACTTGT
GTTCACCTGACACCTGATATCCACCTGGGGCCTGGGTGTCCACGAGGGGCTGATGTTCAGCTGGAGACTGGATATCCACC
TGGGGCTTGGGGATCCATCAAGAAACTGATGTCAAACTGGGGCCTGATGTCTACCTGCGGACTGGGTATCCATGTGAGGC
TTGATGTTCATCCATGGCCAGACGTCCATCTGATGCTTGATGTCCACCTTACTCCTGGGTGTCTACTGGAGACCTCATGT
CCAGCTAGA

Alignment

ORF - retro_ggor_78 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.66 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLTYGLVSTWGLVITWELDINLGPGYPPGNGLSMERLECQPWTWCPPCGLMYSWVLVSSWGLIFTWGLGI
          .....L.STWGLVITW.L.I.LG..YPPG..LS..R..C.PWTW...C.LMY.....SSWG....WGL..
Retrocopy MFIWNLISTWGLVITWVLGIHLGLEYPPG-ALSFTRDSCLPWTWVYICCLMYTLRVMSSWGQMSSWGLSV

Parental  HLITGIHQGTSVQLGPDVHLGPGVNLDRGVNLGPGYLPGAWIFIVDLVSTQGLMSTLGLGIYLGPDVDLG
          HL......GT.V.L.PD.HLGPG......V.L..GY.PGAW..I..L.S..GLMST.GLGI....DV...
Retrocopy HLVPDVCLGTCVHLTPDIHLGPGCPRGADVQLETGYPPGAWGSIKKLMSNWGLMSTCGLGIHVRLDVHPW

Parental  PDVYSGSAVHL
          PDV.....VHL
Retrocopy PDVHLMLDVHL

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	0.48 RPM	0.62 RPM
SRP007412_cerebellum	0.95 RPM	1.22 RPM
SRP007412_heart	0.03 RPM	0.16 RPM
SRP007412_kidney	0.08 RPM	0.04 RPM
SRP007412_liver	0.05 RPM	0.03 RPM
SRP007412_testis	0.10 RPM	0.31 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_78 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_78 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000025403	2 retrocopies	retro_ggor_1605, retro_ggor_78 ,
Pongo abelii	ENSPPYG00000020009	1 retrocopy	retro_pabe_3216,