RetrogeneDB ID: retro_ggor_2175

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:58821168..58821733(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNASEH1
• Ensembl ID: ENSGGOG00000034822
• Aliases: None
• Description: None

Sequence

>retro_ggor_2175
TCTGCAAGCCCGGAAGTTTCAGAAGGGCAGGAAAATCAACATGGACAAGAATCGGAGACGAAAGCCAGCAAGCGACTCCG
TGAGCCACTGGATGGAGATGGAGATGAAAGCGCAGAGCCATATGCAAGCACGTGAAGCCGAGCGTGAAGCCGGCGCCTCC
AGTTAGCAGAGACACGTTTTCCTACATGGGAGACTTCGTCGTCGTCTACGCTGATGGCTGCTGCTCCAGTAATGGGCGTA
GAAGGCCACGAGCAGGAATCCGCATTTACTGGGGGCCGGGCTATCCTTTAAATGTAGGCATTAGACTTCCTGGGTGGCAG
ACAAACCAAAGAGCGGAAATTCATGCAGCCTGCAAGGCCATTGAACAAGCAAAGACTCAGAACATCAATAAACTGGTTCT
GTATACGACAGTATGTTTACGATAAATGGTATAACTAACTGGGTTCAAGGTTGGAAGAAAAATGGGTGGAAGACAAGTGC
AGGGAAAGAGGTGATCAACAAAGAGGACTTCGTGGCACTGGAGAGGCTGACCCAGGGGATGGACATTCAGTGGGCGAGTA
TCTTA

Alignment

ORF - retro_ggor_2175 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.58 %
• Parental protein coverage: 66.78 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SASPEVSEGRENQHGQESDAKAIKRLREPLDGDGHESAEPYA-KHMKPSVEPAPPVSRDMFSYMGDFVVV
          SASPEVSEG.ENQHGQES..KA.KRLREPLDGDG.ESAEPYA.KH.KPSV.PAPPVSRD.FSYMGDFVVV
Retrocopy SASPEVSEGQENQHGQESETKASKRLREPLDGDGDESAEPYA<KHVKPSVKPAPPVSRDTFSYMGDFVVV

Parental  YTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNINKLVLYT-DS
          Y.DGCCSSNGRRRPRAGI..YWGPG.PLNVGIRLPG.QTNQRAEIHAACKAIEQAKTQNINKLVLYT.DS
Retrocopy YADGCCSSNGRRRPRAGIRIYWGPGYPLNVGIRLPGWQTNQRAEIHAACKAIEQAKTQNINKLVLYT<DS

Parental  MFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWKMVL
          MFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQW...L
Retrocopy MFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWASIL

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	7.62 RPM
SRP007412_cerebellum	0.08 RPM	6.62 RPM
SRP007412_heart	0.00 RPM	3.16 RPM
SRP007412_kidney	0.04 RPM	4.95 RPM
SRP007412_liver	0.00 RPM	2.82 RPM
SRP007412_testis	0.52 RPM	6.53 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_2175 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2175 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_18

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008547	6 retrocopies	retro_chof_158, retro_chof_1653, retro_chof_1836, retro_chof_2224, retro_chof_485, retro_chof_843,
Callithrix jacchus	ENSCJAG00000035450	1 retrocopy	retro_cjac_3811,
Echinops telfairi	ENSETEG00000012674	1 retrocopy	retro_etel_1286,
Gorilla gorilla	ENSGGOG00000034822	2 retrocopies	retro_ggor_2175 , retro_ggor_336,
Macropus eugenii	ENSMEUG00000003610	1 retrocopy	retro_meug_1172,
Macaca mulatta	ENSMMUG00000014475	2 retrocopies	retro_mmul_544, retro_mmul_799,
Monodelphis domestica	ENSMODG00000014491	1 retrocopy	retro_mdom_593,
Nomascus leucogenys	ENSNLEG00000015400	2 retrocopies	retro_nleu_2399, retro_nleu_2959,
Pongo abelii	ENSPPYG00000025873	1 retrocopy	retro_pabe_18,
Pteropus vampyrus	ENSPVAG00000002070	1 retrocopy	retro_pvam_144,
Sarcophilus harrisii	ENSSHAG00000013051	1 retrocopy	retro_shar_245,