RetrogeneDB ID: retro_ggor_2351

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:70950500..70951131(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000022678
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: CCDC112
• Ensembl ID: ENSGGOG00000001120
• Aliases: None
• Description: None

Sequence

>retro_ggor_2351
AGTCATCTCTACAACAACAACAACAAAACTTCAGAATTTGGCAGTATGCTGAAAGAATTGGAAAATAAACTGATTATCAG
CAGGAAAATAGAGCAAAAACCCAATAACAGTTGTTCAAAATATATAACAATGTAAAGTGACTTTAGCATCAGTTGTAAAG
TGTGACACCTACACCTGATTTTATTGCAAAGCTCAGAGAAATGAACGTAAGCAATTAAAAGTACAGTAAACATTTTTAAG
AAAGAACAGAGGTTGATTACATGAAAAGCTTAATAAAGACAAGAAAATAGCCAAAAATTAGTTGAATACTGTATCAAGGA
AAATTGACATATGGGCTTTTGGTCACTAGAAACATGGAGAACTTTCAGAAGAATGTTAAGCAAAGTTCCTGTAGACAGAA
TACAACAAAGTAGTCTTCCAGGAGAAATGGTAGATTTTGCAAAATTCCTTCAGTAAACAGTAGGATGTCAAGGGTGCTGG
ATGATTGTGATCACCAGAACTTTGTAAAAATGAGAAACAAGCATAAAAAGAAGACAAGATATATAGGGGAAGTTTTGCAA
CACCATCCTGGAAGAGCACAGGATAAAGTGCAACAGTATGAAAGATACATTAAAAATTTCTGACTCTAGAA

Alignment

ORF - retro_ggor_2351 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.22 %
• Parental protein coverage: 69.08 %
• Number of stop codons detected: 6
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  SHFYNQKSDFRIEHSMLEELENKLI-HSRE-RAKIQQQLAKIHNNVKKLQHQLKDVKPTPDFVEKLREMM
          SH.YN.........SML.ELENKLI....E.RAK.Q.QL.KI.NNVK.L.HQL..V.PTPDF..KLREM.
Retrocopy SHLYNNNNKTSEFGSMLKELENKLI<YQQENRAKTQ*QLFKIYNNVK*L*HQL*SVTPTPDFIAKLREMN

Parental  EE-IENAINTFKEEQRLI-YEELIKEEKTTNNELSAISRKIDTWALGN-SETEKAFRAISSKVPVDKVTP
          ...I....N.FK.EQRLI..E.L.K..K...N.L...SRKID.WA.G...ET...FR...SKVPVD....
Retrocopy VS>IKSTVNIFKKEQRLI>HEKLNKDKKIAKN*LNTVSRKIDIWAFGH<LETWRTFRRMLSKVPVDRIQQ

Parental  STLPEEVLDFEKFLQQTGGRQGAW-DDYDHQNFVKVRNKHKGKPPFMEEVLEHLPGKTQDEVQQHEKWYQ
          S.LP.E..DF.KFLQ.T.G.QG.W.DD.DHQNFVK.RNKHK.K.....EVL.H.PG..QD.VQQ.E....
Retrocopy SSLPGEMVDFAKFLQ*TVGCQGCW<DDCDHQNFVKMRNKHKKKTRYIGEVLQHHPGRAQDKVQQYERYIK

Parental  -KFLALE
          .KFL.LE
Retrocopy <KFLTLE

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	2.01 RPM
SRP007412_cerebellum	0.00 RPM	1.62 RPM
SRP007412_heart	0.00 RPM	0.09 RPM
SRP007412_kidney	0.12 RPM	1.02 RPM
SRP007412_liver	0.00 RPM	0.63 RPM
SRP007412_testis	0.00 RPM	12.54 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_2351 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2351 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000001120	1 retrocopy	retro_ggor_2351 ,