RetrogeneDB ID: retro_ggor_2800

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 9:43752747..43753071(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CDK2AP2
• Ensembl ID: ENSGGOG00000010159
• Aliases: None
• Description: None

Sequence

>retro_ggor_2800
ATGTCCTACAAACCTACCACCCCTGCCCCCAGCAGCACCCCCGGCTCCAGCACCCCTGGGCCAGGCACTCCGGTCCCTAC
AGGAAGCGTCCCGTCGCCGTCGGGCTCAGGGCCGGGAGCCACTGCCCCTTGCAGACCGCTGTTTAAAGACTTTGGACCGC
CTACCGTTAGTTGTGTGCAGGCCATGAAACCACCTGGTGCCCAGGGCTCCCAGAGCACCTACACGGAACTGCTGTTGGTC
ACAGGGGAGATGGGCAAAGGGATCCGGCCCACCTATGCTGGCAGCAAGAGCGCCGCGAAGCGCCTGAAGAGAGGTATCAT
CCAT

Alignment

ORF - retro_ggor_2800 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.26 %
• Parental protein coverage: 85.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSYKPIAPAPSSTPGSSTPGPGTPVPTGSVPSPSGSVPGAGAPFRPLFNDFGPPSMGYVQAMKPPGAQGS
          MSYKP..PAPSSTPGSSTPGPGTPVPTGSVPSPSGS.PGA.AP.RPLF.DFGPP....VQAMKPPGAQGS
Retrocopy MSYKPTTPAPSSTPGSSTPGPGTPVPTGSVPSPSGSGPGATAPCRPLFKDFGPPTVSCVQAMKPPGAQGS

Parental  QSTYTDLLSVIEEMGKEIRPTYAGSKSAMERLKRGIIH
          QSTYT.LL.V..EMGK.IRPTYAGSKSA..RLKRGIIH
Retrocopy QSTYTELLLVTGEMGKGIRPTYAGSKSAAKRLKRGIIH

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	0.05 RPM	12.28 RPM
SRP007412_cerebellum	0.00 RPM	17.45 RPM
SRP007412_heart	0.31 RPM	18.11 RPM
SRP007412_kidney	0.08 RPM	16.36 RPM
SRP007412_liver	0.00 RPM	38.33 RPM
SRP007412_testis	0.00 RPM	4.45 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_2800 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2800 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011370	1 retrocopy	retro_cfam_55,
Equus caballus	ENSECAG00000020079	2 retrocopies	retro_ecab_180, retro_ecab_579,
Echinops telfairi	ENSETEG00000006428	3 retrocopies	retro_etel_257, retro_etel_334, retro_etel_437,
Homo sapiens	ENSG00000167797	4 retrocopies	retro_hsap_3699, retro_hsap_4172, retro_hsap_4176, retro_hsap_4268,
Gorilla gorilla	ENSGGOG00000009567	1 retrocopy	retro_ggor_1968,
Gorilla gorilla	ENSGGOG00000010159	3 retrocopies	retro_ggor_2502, retro_ggor_2799, retro_ggor_2800 ,
Macaca mulatta	ENSMMUG00000011827	5 retrocopies	retro_mmul_1712, retro_mmul_640, retro_mmul_728, retro_mmul_730, retro_mmul_763,
Nomascus leucogenys	ENSNLEG00000006438	1 retrocopy	retro_nleu_176,
Otolemur garnettii	ENSOGAG00000008275	1 retrocopy	retro_ogar_1584,
Pan troglodytes	ENSPTRG00000003966	9 retrocopies	retro_ptro_2508, retro_ptro_2973, retro_ptro_2976, retro_ptro_3002, retro_ptro_3003, retro_ptro_3004, retro_ptro_3005, retro_ptro_3008, retro_ptro_3009,
Tupaia belangeri	ENSTBEG00000005476	2 retrocopies	retro_tbel_439, retro_tbel_612,