RetrogeneDB ID: retro_ggor_2509

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:27297532..27297989(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000027198
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NHP2
• Ensembl ID: ENSGGOG00000000015
• Aliases: None
• Description: None

Sequence

>retro_ggor_2509
ATGACCAAAATAAAGGTAGATTCGATGGGCCCGAGGCTCAGGAGGAGGCGCGCCCCGGGAAGCGCACCTACCAGGAGCTG
CTGGTTAACCAGAACCCCATCGTGCAGCCCCTGGCTTCTCGCCGCCTCACGCGGAACCTCTACAAATGCATCAAGAAAGC
CATGAAGCAGAAGCAGCTTCGGGGCGGGGTGAAAGAGGTTCAGGAATTTGTCAACAAAGGAGAAAAAGGGATCATGGTTT
TGGCAGAAGACACACTGCCCATTGAGGTATACTGCCATCTTCCAGTCATGTGTGAGGACCGAAATCTGGCCTATGTCTCT
ATCCCTCTAAGATGGACCTGGGTGCAGCCGCAGGCTCCAAGCGCCCCACCTGTGTGATAATGGTCAAGCCCCACGAGGAG
TACCAGGAGGCCTACGACAAGTGCCTGGAGGAGGTGCAGTCCCTACCCCTACCCCTA

Alignment

ORF - retro_ggor_2509 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.1 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MTKIKADP-DGPDAQAEACSGERTYQELLVNQNPIAQPLASRRLTRKLYKCIKKAVKQKQIRRGVKEVQK
          MTKIK.D..DGP.AQ.EA..G.RTYQELLVNQNPI.QPLASRRLTR.LYKCIKKA.KQKQ.R.GVKEVQ.
Retrocopy MTKIKVDS<DGPEAQEEARPGKRTYQELLVNQNPIVQPLASRRLTRNLYKCIKKAMKQKQLRGGVKEVQE

Parental  FVNKGEKGIMVLAGDTLPIEVYCHLPVMCEDRNLPYVYI-PSKTDLGAAAGSKRPTCVIMVKPHEEYQEA
          FVNKGEKGIMVLA.DTLPIEVYCHLPVMCEDRNL.YV.I.PSK.DLGAAAGSKRPTCVIMVKPHEEYQEA
Retrocopy FVNKGEKGIMVLAEDTLPIEVYCHLPVMCEDRNLAYVSI<PSKMDLGAAAGSKRPTCVIMVKPHEEYQEA

Parental  YDECLEEVQSLPLPL
          YD.CLEEVQSLPLPL
Retrocopy YDKCLEEVQSLPLPL

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	39.27 RPM
SRP007412_cerebellum	0.00 RPM	26.36 RPM
SRP007412_heart	0.00 RPM	20.67 RPM
SRP007412_kidney	0.04 RPM	31.65 RPM
SRP007412_liver	0.00 RPM	23.90 RPM
SRP007412_testis	0.10 RPM	26.21 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_2509 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2509 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3712

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012244	1 retrocopy	retro_cjac_264,
Homo sapiens	ENSG00000145912	2 retrocopies	retro_hsap_3712, retro_hsap_611,
Gorilla gorilla	ENSGGOG00000000015	1 retrocopy	retro_ggor_2509 ,
Macropus eugenii	ENSMEUG00000003839	2 retrocopies	retro_meug_285, retro_meug_320,
Macaca mulatta	ENSMMUG00000018757	1 retrocopy	retro_mmul_1702,
Monodelphis domestica	ENSMODG00000004231	1 retrocopy	retro_mdom_345,
Mus musculus	ENSMUSG00000001056	1 retrocopy	retro_mmus_565,
Oryctolagus cuniculus	ENSOCUG00000016057	1 retrocopy	retro_ocun_151,
Ochotona princeps	ENSOPRG00000007907	3 retrocopies	retro_opri_305, retro_opri_421, retro_opri_810,
Pongo abelii	ENSPPYG00000016105	3 retrocopies	retro_pabe_1704, retro_pabe_3143, retro_pabe_481,
Rattus norvegicus	ENSRNOG00000004247	2 retrocopies	retro_rnor_1436, retro_rnor_2198,
Sus scrofa	ENSSSCG00000014032	1 retrocopy	retro_sscr_407,