RetrogeneDB ID: retro_ggor_872

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:48926458..48926727(-)
• Located in intron of: ENSGGOG00000012313

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM32A
• Ensembl ID: ENSGGOG00000022418
• Aliases: None
• Description: None

Sequence

>retro_ggor_872
GCCTCTGATCAGGTCCAGAAGGGACCCCTTTAGCTGAAAGGCATCGCAGAGCTCAGTGTGATCAAGCAGAAGAAGAAAAA
GAAGGACAAAGGCAAGGCAAATTTCCTGAAAGCCATGGCAATGAGCAAAAAGAACAAGGGGGAGAAGCAACACAGCCTGG
ACAAGTGGACCCCAGCCCAGATGGCCTTAGAAAGATGCAAGAGAAGTGTCAAATGGGAAGGATCCTGAAGAAAGCATCTG
AAATCTACAAGCAGAGAGTGGAGGACTTC

Alignment

ORF - retro_ggor_872 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.33 %
• Parental protein coverage: 80.36 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AYEQVQKGPLKLKGVAELGVTKRKKKKKDKDKAKLLEAMGTSKKNEEEKRRGLDKRTPAQAAFE-KMQEK
          A..QVQKGPL.LKG.AEL.V.K.KKKKKDK.KA..L.AM..SKKN..EK...LDK.TPAQ.A.E.KMQEK
Retrocopy ASDQVQKGPL*LKGIAELSVIKQKKKKKDKGKANFLKAMAMSKKNKGEKQHSLDKWTPAQMALE<KMQEK

Parental  RQMERILKKASKTHKQRVEDF
          .QM.RILKKAS...KQRVEDF
Retrocopy CQMGRILKKASEIYKQRVEDF

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	67.47 RPM
SRP007412_cerebellum	0.04 RPM	46.81 RPM
SRP007412_heart	0.00 RPM	21.83 RPM
SRP007412_kidney	0.00 RPM	61.66 RPM
SRP007412_liver	0.03 RPM	43.13 RPM
SRP007412_testis	0.00 RPM	44.24 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_872 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_872 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1116
Pan troglodytes	retro_ptro_684

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Parental genes homology:

Parental genes homology involve 16 parental genes, and 36 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000046846	1 retrocopy	retro_btau_312,
Callithrix jacchus	ENSCJAG00000014097	4 retrocopies	retro_cjac_15, retro_cjac_2459, retro_cjac_288, retro_cjac_979,
Homo sapiens	ENSG00000105058	4 retrocopies	retro_hsap_1116, retro_hsap_1950, retro_hsap_2541, retro_hsap_693,
Gorilla gorilla	ENSGGOG00000022418	4 retrocopies	retro_ggor_1420, retro_ggor_1587, retro_ggor_592, retro_ggor_872 ,
Loxodonta africana	ENSLAFG00000009394	1 retrocopy	retro_lafr_654,
Microcebus murinus	ENSMICG00000013721	3 retrocopies	retro_mmur_1449, retro_mmur_252, retro_mmur_500,
Myotis lucifugus	ENSMLUG00000000585	2 retrocopies	retro_mluc_2147, retro_mluc_59,
Monodelphis domestica	ENSMODG00000014904	1 retrocopy	retro_mdom_1401,
Mustela putorius furo	ENSMPUG00000016048	1 retrocopy	retro_mputfur_1493,
Mus musculus	ENSMUSG00000003039	2 retrocopies	retro_mmus_1612, retro_mmus_3017,
Nomascus leucogenys	ENSNLEG00000005441	3 retrocopies	retro_nleu_192, retro_nleu_2227, retro_nleu_2790,
Otolemur garnettii	ENSOGAG00000027763	2 retrocopies	retro_ogar_3348, retro_ogar_949,
Pan troglodytes	ENSPTRG00000010641	4 retrocopies	retro_ptro_1304, retro_ptro_1480, retro_ptro_497, retro_ptro_684,
Rattus norvegicus	ENSRNOG00000039528	1 retrocopy	retro_rnor_105,
Sus scrofa	ENSSSCG00000013855	2 retrocopies	retro_sscr_292, retro_sscr_870,
Tarsius syrichta	ENSTSYG00000009106	1 retrocopy	retro_tsyr_418,