RetrogeneDB ID: retro_ggor_2418

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:45020021..45020458(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EXOSC8
• Ensembl ID: ENSGGOG00000011902
• Aliases: None
• Description: None

Sequence

>retro_ggor_2418
GGGAACATGGTAGCTGGGTTCAAAACCACGGAACCTCTGGTAATTACAGGAGATTTCTGAAAGAGATCTGCCTTGCTGAT
GAAAGAGAACTTGGTGAATTCAGAACCACAACTGTCAACACAGGTTCAATTAGTACTGCAGTCAGTTCTCCTTTAGTGAA
GCTGGGAAACACTACAGTAATGTGTAAGGTTAAAGCAGAGTTTGCAGCACCATCCACAGATGCTTCCATAAAGGATCTGT
GGCTCCCACTGGGGCTCTGCCACCCTTGTGTTCCATTGAGATTTCAGTCTGGACCTCCTGGAGAAGAGACCCAAGCCACT
AGCCAGATCACTGAAGATATCACTGAAAATTCACAGATAATTCAGAAAAGGAATTTATGCATTTCTCCAGGAAAGCGTGT
TTGAATTCTATGCTATGATCTCATTTGCCTCTCTCAT

Alignment

ORF - retro_ggor_2418 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.8 %
• Parental protein coverage: 52.52 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  GKMAAGFKTVEPLEY-YRRFLKENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGVKAEFA
          G.M.AGFKT.EPL...YRRFLKE.C..D.RELGEFRTTTVN.GSISTA..S.LVKLGNTTV.C.VKAEFA
Retrocopy GNMVAGFKTTEPLVI<YRRFLKEICLADERELGEFRTTTVNTGSISTAVSSPLVKLGNTTVMCKVKAEFA

Parental  APPTDAP-DKGYVVPNVDLPPLCS-SRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISPGKLVWVL
          AP.TDA...KG.V.P...LPPLCS..RF.SGPPGEE.Q..SQ...D..ENSQIIQK..LCISPGK.V..L
Retrocopy APSTDAS<HKGSVAPTGALPPLCS>LRFQSGPPGEETQATSQITEDITENSQIIQKRNLCISPGKRV*IL

Parental  YCDLICLDY
          ..DLICL..
Retrocopy CYDLICLSH

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	4.65 RPM
SRP007412_cerebellum	0.00 RPM	6.07 RPM
SRP007412_heart	0.00 RPM	2.56 RPM
SRP007412_kidney	0.00 RPM	8.59 RPM
SRP007412_liver	0.00 RPM	6.12 RPM
SRP007412_testis	0.00 RPM	57.71 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_2418 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2418 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3585
Pan troglodytes	retro_ptro_2429

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000120699	1 retrocopy	retro_hsap_3585,
Gorilla gorilla	ENSGGOG00000011902	1 retrocopy	retro_ggor_2418 ,
Nomascus leucogenys	ENSNLEG00000001745	1 retrocopy	retro_nleu_1684,
Otolemur garnettii	ENSOGAG00000002745	2 retrocopies	retro_ogar_1154, retro_ogar_423,
Pongo abelii	ENSPPYG00000005287	1 retrocopy	retro_pabe_2071,
Pan troglodytes	ENSPTRG00000005790	1 retrocopy	retro_ptro_2429,
Pteropus vampyrus	ENSPVAG00000014610	1 retrocopy	retro_pvam_275,
Tupaia belangeri	ENSTBEG00000012040	9 retrocopies	retro_tbel_1492, retro_tbel_1680, retro_tbel_2932, retro_tbel_349, retro_tbel_3712, retro_tbel_4030, retro_tbel_419, retro_tbel_4649, retro_tbel_527,