RetrogeneDB ID: retro_ggor_2729

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:57546143..57546509(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: NUDT15
• Ensembl ID: ENSGGOG00000008232
• Aliases: None
• Description: None

Sequence

>retro_ggor_2729
GTCAAAGTCGGAGCAGGGGAGACTAGCTGCAGGCATCGCGTTGTGTCCTTCTGGGGAAGAGAAAGGGGTCGTCTGGAGCC
AGCAGTTTCCAACTTCCTGGGGGCCATTTGGAGTTCGGTAAGAGCTGGGAAGAATGCACTGAAAAGGAAGCCTGGAAAGA
AGCAGCTCTTCACCTGAAAAATGTTTGCTTTGCCTCAGTTGAGAGTTCTTTCGTTGAGAAAGAGAATTATCATGTTACCA
TATTAACCAAAGGAGAGGTGGACGTGACTCATGATTCAGAACCACAGAAAGTGGAGCCTGAAAAAAAATGAAAGTTGGGA
CTGGGTTCCTTGGGAAGAATTTCCTCTACTAGATCAGCTTTTCTGG

Alignment

ORF - retro_ggor_2729 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.2 %
• Parental protein coverage: 75. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  VGVGVVVTSCKH-PRCVLLGKRKGSVGAGSFQLPGGHLEFGETWEECAQRETWEEAALHLKNVHFASVVN
          V.VG...TSC.H..RCVLLGKRKGS.GA.SFQLPGGHLEFG..WEEC...E.W.EAALHLKNV.FASV..
Retrocopy VKVGAGETSCRH<SRCVLLGKRKGSSGASSFQLPGGHLEFGKSWEECTEKEAWKEAALHLKNVCFASVES

Parental  SFIEKENYHYVTILMKGEVDVTHDSEPKNVEP-EKNESWEWVPWEELPPLDQLFW
          SF.EKENYH.VTIL.KGEVDVTHDSEP..VEP....ESW.WVPWEE.P.LDQLFW
Retrocopy SFVEKENYH-VTILTKGEVDVTHDSEPQKVEP>XXXESWDWVPWEEFPLLDQLFW

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	3.88 RPM
SRP007412_cerebellum	0.00 RPM	3.35 RPM
SRP007412_heart	0.00 RPM	1.31 RPM
SRP007412_kidney	0.08 RPM	6.46 RPM
SRP007412_liver	0.00 RPM	3.24 RPM
SRP007412_testis	0.00 RPM	20.82 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_2729 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2729 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 10 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019501	1 retrocopy	retro_btau_559,
Callithrix jacchus	ENSCJAG00000009274	1 retrocopy	retro_cjac_1497,
Homo sapiens	ENSG00000136159	2 retrocopies	retro_hsap_1822, retro_hsap_4063,
Gorilla gorilla	ENSGGOG00000008232	3 retrocopies	retro_ggor_2171, retro_ggor_2257, retro_ggor_2729 ,
Microcebus murinus	ENSMICG00000009583	1 retrocopy	retro_mmur_962,
Mus musculus	ENSMUSG00000033405	1 retrocopy	retro_mmus_1923,
Nomascus leucogenys	ENSNLEG00000002957	2 retrocopies	retro_nleu_2878, retro_nleu_563,
Pongo abelii	ENSPPYG00000005353	2 retrocopies	retro_pabe_1490, retro_pabe_3337,
Pan troglodytes	ENSPTRG00000042329	1 retrocopy	retro_ptro_82,
Tarsius syrichta	ENSTSYG00000006960	1 retrocopy	retro_tsyr_146,