RetrogeneDB ID: retro_ggor_1032

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 14:17082873..17083255(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUTF2
• Ensembl ID: ENSGGOG00000023925
• Aliases: None
• Description: None

Sequence

>retro_ggor_1032
GTGGGAGACAAGCCAATTTGGGAGCAGATAGGATCCAGCTTCATTCCACATTACTACCAGTTATTTGATAACGATAGACC
CCAACTAGGCGCAATTTACATTGACGCATCATGCCTTACGTGGGAAGGACAACAGTTCCATGGGAAAGCTGCCATTGTGG
AGAAGTTGTCTAGCCTTCGGTTCCAGAAAATCCAGCACAGCATCACCGCGCAGGACCATCAGCTCACGCCGCATAGCTGC
ATCATCAGCATGGTTGTGGGCCAGCTTAAGGCGGATGAAGACCGCCATCATGGGGTTCCACCGGATGTTCCTATTAAAGA
ACATCAACAATACTTGGGTTTGCACCAATGACATGTTCAGGCTTGCCCTGCACAACTTTGGC

Alignment

ORF - retro_ggor_1032 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.62 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGDKPIWEQIGSSFIQHYYQLFDNDRTQLGAIYIDASCLTWEGQQFQGKAAIVEKLSSLPFQKIQHSITA
          .GDKPIWEQIGSSFI.HYYQLFDNDR.QLGAIYIDASCLTWEGQQF.GKAAIVEKLSSL.FQKIQHSITA
Retrocopy VGDKPIWEQIGSSFIPHYYQLFDNDRPQLGAIYIDASCLTWEGQQFHGKAAIVEKLSSLRFQKIQHSITA

Parental  QDHQPTPDSCIISMVVGQLKADED-PIMGFHQMFLLKNINDAWVCTNDMFRLALHNFG
          QDHQ.TP.SCIISMVVGQLKADED..IMGFH.MFLLKNIN..WVCTNDMFRLALHNFG
Retrocopy QDHQLTPHSCIISMVVGQLKADED>AIMGFHRMFLLKNINNTWVCTNDMFRLALHNFG

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	0.14 RPM	39.71 RPM
SRP007412_cerebellum	0.04 RPM	31.79 RPM
SRP007412_heart	0.03 RPM	19.54 RPM
SRP007412_kidney	0.12 RPM	29.15 RPM
SRP007412_liver	0.05 RPM	22.66 RPM
SRP007412_testis	0.00 RPM	39.37 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_1032 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1032 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1322
Pan troglodytes	retro_ptro_903
Pongo abelii	retro_pabe_1101
Macaca mulatta	retro_mmul_2169

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Parental genes homology:

Parental genes homology involve 35 parental genes, and 131 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017548	5 retrocopies	retro_amel_1225, retro_amel_134, retro_amel_1485, retro_amel_415, retro_amel_445,
Bos taurus	ENSBTAG00000006414	2 retrocopies	retro_btau_1573, retro_btau_881,
Choloepus hoffmanni	ENSCHOG00000003059	3 retrocopies	retro_chof_1386, retro_chof_1619, retro_chof_2488,
Callithrix jacchus	ENSCJAG00000016015	14 retrocopies	retro_cjac_1328, retro_cjac_2247, retro_cjac_2562, retro_cjac_2864, retro_cjac_2913, retro_cjac_2953, retro_cjac_2978, retro_cjac_3126, retro_cjac_3299, retro_cjac_4044, retro_cjac_4173, retro_cjac_587, retro_cjac_777, retro_cjac_924,
Cavia porcellus	ENSCPOG00000003521	1 retrocopy	retro_cpor_1368,
Equus caballus	ENSECAG00000021530	1 retrocopy	retro_ecab_151,
Erinaceus europaeus	ENSEEUG00000003470	2 retrocopies	retro_eeur_149, retro_eeur_571,
Echinops telfairi	ENSETEG00000016354	9 retrocopies	retro_etel_1700, retro_etel_1737, retro_etel_1909, retro_etel_1925, retro_etel_245, retro_etel_281, retro_etel_301, retro_etel_399, retro_etel_746,
Felis catus	ENSFCAG00000008167	3 retrocopies	retro_fcat_154, retro_fcat_743, retro_fcat_845,
Homo sapiens	ENSG00000102898	7 retrocopies	retro_hsap_1322, retro_hsap_1480, retro_hsap_1858, retro_hsap_207, retro_hsap_4181, retro_hsap_4854, retro_hsap_544,
Gorilla gorilla	ENSGGOG00000023925	5 retrocopies	retro_ggor_1032 , retro_ggor_2152, retro_ggor_279, retro_ggor_2806, retro_ggor_3028,
Loxodonta africana	ENSLAFG00000031037	1 retrocopy	retro_lafr_623,
Macropus eugenii	ENSMEUG00000009874	11 retrocopies	retro_meug_1023, retro_meug_136, retro_meug_1539, retro_meug_1585, retro_meug_1778, retro_meug_2140, retro_meug_253, retro_meug_282,