RetrogeneDB ID: retro_ggor_108

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: X:52219568..52220060(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000015735
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: NUDT4
• Ensembl ID: ENSGGOG00000014324
• Aliases: None
• Description: None

Sequence

>retro_ggor_108
ATGAAGTGCAAACCCAACCAGACGCGGACCTACGACCCCGAGGGGTTCAAGAAGCGGGCGGCGTGCCTGTGCTTCCGGAG
CGAGCGCGAGGACGAGGTCCTGTTAGTGAGTAGCAGCCGGTACCCGGACCGCTGGATCGTGCCGGGCGGGGGCATGGAGC
CCGAGGAGGAGCCGGGCGGTGCGGCGGTCCGAGAGGTGTACGAAGAAGCGGGAGTCAAGGGGAAGTTAGGCCGGCTCCTG
GGCGTCTTCGAACAGAACCAGGATCGCAAGCACAGAACGTACGTGTATGTACTGACTGTCACGGAGCTGCTGGAGGATTG
GGAAGATTCGGTTAGCATTGGGAGGAAGCGAGAGTGGTTCAAAGTCGAAGATGCCATCAAGGTTCTCCAGTGCCACAAGC
CCGTGCACGCCGAATATCTGGAGAAACTAAAGCTGGGCGGTTCCCCAACCAATGGAAACTCCATGGCCCCATCCTCGCCA
GATAGCGATCCC

Alignment

ORF - retro_ggor_108 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.41 %
• Parental protein coverage: 90.06 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKFKPNQTRTYDREGFKKRAACLCFRSEQEDEVLLVSSSRYPDQWIVPGGGMEPEEEPGGAAVREVYEEA
          MK.KPNQTRTYD.EGFKKRAACLCFRSE.EDEVLLVSSSRYPD.WIVPGGGMEPEEEPGGAAVREVYEEA
Retrocopy MKCKPNQTRTYDPEGFKKRAACLCFRSEREDEVLLVSSSRYPDRWIVPGGGMEPEEEPGGAAVREVYEEA

Parental  GVKGKLGRLLGIFEQNQDRKHRTYVYVLTVTEILEDWEDSVNIGRKREWFKVEDAIKVLQCHKPVHAEYL
          GVKGKLGRLLG.FEQNQDRKHRTYVYVLTVTE.LEDWEDSV.IGRKREWFKVEDAIKVLQCHKPVHAEYL
Retrocopy GVKGKLGRLLGVFEQNQDRKHRTYVYVLTVTELLEDWEDSVSIGRKREWFKVEDAIKVLQCHKPVHAEYL

Parental  EKLKLGCSPANGNSTVPSLPDNN
          EKLKLG.SP.NGNS..PS.PD..
Retrocopy EKLKLGGSPTNGNSMAPSSPDSD

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	15.06 RPM	72.79 RPM
SRP007412_cerebellum	3.55 RPM	33.37 RPM
SRP007412_heart	0.06 RPM	27.55 RPM
SRP007412_kidney	0.61 RPM	102.43 RPM
SRP007412_liver	0.03 RPM	82.91 RPM
SRP007412_testis	21.03 RPM	76.87 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_108 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_108 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 18 parental genes, and 33 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000009844	2 retrocopies	retro_amel_1401, retro_amel_36,
Dasypus novemcinctus	ENSDNOG00000015207	3 retrocopies	retro_dnov_1906, retro_dnov_2555, retro_dnov_41,
Dipodomys ordii	ENSDORG00000000647	3 retrocopies	retro_dord_26, retro_dord_272, retro_dord_660,
Equus caballus	ENSECAG00000019319	1 retrocopy	retro_ecab_472,
Echinops telfairi	ENSETEG00000013922	2 retrocopies	retro_etel_1627, retro_etel_2111,
	ENSG00000173598	0 retrocopies
Gorilla gorilla	ENSGGOG00000014324	1 retrocopy	retro_ggor_108 ,
Loxodonta africana	ENSLAFG00000013776	1 retrocopy	retro_lafr_1131,
Microcebus murinus	ENSMICG00000007100	2 retrocopies	retro_mmur_1521, retro_mmur_1565,
Myotis lucifugus	ENSMLUG00000002767	1 retrocopy	retro_mluc_753,
Monodelphis domestica	ENSMODG00000009468	1 retrocopy	retro_mdom_214,
Mus musculus	ENSMUSG00000020029	3 retrocopies	retro_mmus_1201, retro_mmus_1202, retro_mmus_1203,
Oryctolagus cuniculus	ENSOCUG00000011283	1 retrocopy	retro_ocun_1905,
Pteropus vampyrus	ENSPVAG00000013730	1 retrocopy	retro_pvam_1423,
Ictidomys tridecemlineatus	ENSSTOG00000020306	1 retrocopy	retro_itri_112,
Tupaia belangeri	ENSTBEG00000012198	7 retrocopies	retro_tbel_1705, retro_tbel_2322, retro_tbel_3443, retro_tbel_3472, retro_tbel_3733, retro_tbel_3739, retro_tbel_4678,
Tursiops truncatus	ENSTTRG00000003309	2 retrocopies	retro_ttru_1625, retro_ttru_1925,
Vicugna pacos	ENSVPAG00000002957	1 retrocopy	retro_vpac_507,