RetrogeneDB ID: retro_ggor_261

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 1:86511123..86511346(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NEDD8
• Ensembl ID: ENSGGOG00000016105
• Aliases: None
• Description: None

Sequence

>retro_ggor_261
ACGCTAACTGGAAAGGAGACTGAGATTGATATTGAACCTACAGACAAGGTGGAGTGAATCAAGGAGCATGTGGAGGAGAA
AGAGGGAATCCCCCCACAACAGCAGAGGCTCATCTACAGTGGCAAACATGAATGATGAGAAGACAGCAGCTGATTACAAG
ATTTTAGGTGGTTCAGTCCTTCACCTGGTGTTGGCTCTGAGAGGAGGAGGTGGTCTTAGGCAG

Alignment

ORF - retro_ggor_261 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.58 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  TLTGKEIEIDIEPTDKVERIKERVEEKEGIPPQQQRLIYSGKQ-MNDEKTAADYKILGGSVLHLVLALRG
          TLTGKE.EIDIEPTDKVE.IKE.VEEKEGI.P.QQ.........MNDEKTAADYKILGGSVLHLVLALRG
Retrocopy TLTGKETEIDIEPTDKVE*IKEHVEEKEGI-PPQQQRLIYSGK>MNDEKTAADYKILGGSVLHLVLALRG

Parental  GGGLRQ
          GGGLRQ
Retrocopy GGGLRQ

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	17.46 RPM	78.36 RPM
SRP007412_cerebellum	5.48 RPM	32.46 RPM
SRP007412_heart	4.60 RPM	25.52 RPM
SRP007412_kidney	4.82 RPM	42.52 RPM
SRP007412_liver	3.14 RPM	23.05 RPM
SRP007412_testis	5.18 RPM	26.94 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_261 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_261 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_180

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000038842	1 retrocopy	retro_btau_89,
Canis familiaris	ENSCAFG00000012097	1 retrocopy	retro_cfam_1789,
Choloepus hoffmanni	ENSCHOG00000001228	5 retrocopies	retro_chof_1012, retro_chof_1616, retro_chof_2696, retro_chof_613, retro_chof_788,
Callithrix jacchus	ENSCJAG00000006876	1 retrocopy	retro_cjac_4064,
Cavia porcellus	ENSCPOG00000010930	1 retrocopy	retro_cpor_371,
Gorilla gorilla	ENSGGOG00000016105	1 retrocopy	retro_ggor_261 ,
Monodelphis domestica	ENSMODG00000003254	1 retrocopy	retro_mdom_1681,