RetrogeneDB ID: retro_ggor_2167

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:48692381..48693256(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DTWD2
• Ensembl ID: ENSGGOG00000009599
• Aliases: None
• Description: None

Sequence

>retro_ggor_2167
AGAAAGAGGCGCGACCCCGTCGCGCGGCCGCCTGGGGCCTCAAGGTCTCAGACGCCAAACTACAAGGAGCGGCGGGAGGG
CGGCGCAGTGCTGGCGACGGCTGCCCTGGGAGCAGAGGCGGACGACGCTAGTGCGGGCGGGCTGTGGGAGCTGCAGGTGG
AGCCGGCCGAGCTGAGGCCTGAGTGCAGCCGCTGCAAGCCGGCCTCAGAAAGTGTGTTTTTGTCCATTTCTCCCAGCGCA
CCCGTTGCATATCTCTACCTACTTGTGCATAATTCAGCATCCAGCAGAGGAAGACAAAATGTTGCGGACAGTTCCTCTAC
CAGCAGCATGCCTCCCCCAGGACAAGCGCAAAGTGAAGACTGGTCGTCGCTTCAGTGAAGAAAGAGATCCTGAACTTTCA
ACTGTTTGCCGGTAGTTTGGTACATTAATATTATATCCAGGGGCTGAAGCTGCTAATCTGGAAGAATTTATATTAGATTC
TCCTGTTTATCCTTCTACAATCATCGTCATTGATGGTACACGGAGCCAGGCTAAGGACATTTTCTGTAAGAATTCCTTGT
TCTGACACCCCCAAACAGGTGCAGTTAAAAACGAGCATTTCTAGTCAGTATGTAATTCGGATGCAGCCAATTAATAGATG
TCTTTCTACACTGGAGTGTGCACCTGTTGCTCTTTCCATCTTGGAGAAAAATAATTACATACAAGAGACTTTGCTTCACC
CTCTTGAAGCTTTATGCTCTTTCCAGATTTAGCATGGTGCCCAAATTGGCCTCAGCAAGCAACACCTTCTGAAAAATGGA
TTATATCCTAAACCAATGCCAAAGAACAAACGCAAACTCAGGAAAATGGAACTATTAAAGAATAGTGTTAAAATT

Alignment

ORF - retro_ggor_2167 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.69 %
• Parental protein coverage: 97.65 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RTFQEPVARPSGASSSQTPNDKERREGGAVSAAAALGAEADDDSADGLWELPVEPAERRPECTRC-SRPQ
          R....PVARP.GAS.SQTPN.KERREGGAV.A.AALGAEADD.SA.GLWEL.VEPAE.RPEC.RC.SRPQ
Retrocopy RKRRDPVARPPGASRSQTPNYKERREGGAVLATAALGAEADDASAGGLWELQVEPAELRPECSRC>SRPQ

Parental  KVCLCPFLPAHPLHISTHLYIIQHPAEENKVLRTVPLLAACLPQDKCKVKIGRRFSEERDPELSTVCRKS
          KVC.CPFLPAHPLHIST.L.IIQHPAEE.K.LRTVPL.AACLPQDK.KVK.GRRFSEERDPELSTVCR..
Retrocopy KVCFCPFLPAHPLHISTYLCIIQHPAEEDKMLRTVPLPAACLPQDKRKVKTGRRFSEERDPELSTVCR*F

Parental  GTLILYPGAEAANLEEFILDSPVYPSTIIIIDGTWSQAKDIFYKNSLFRH-PKQVQLKTSISSQYVIRMQ
          GTLILYPGAEAANLEEFILDSPVYPSTII.IDGT.SQAKDIF.KNSLF.H.PKQVQLKTSISSQYVIRMQ
Retrocopy GTLILYPGAEAANLEEFILDSPVYPSTIIVIDGTRSQAKDIFCKNSLF*H>PKQVQLKTSISSQYVIRMQ

Parental  PTNRCLSTLECAAVALSILEKNNYIQETLLRPLQALCSFQLQHGAQIRLSKEHLLKNGLYPKPMPKNKRK
          P.NRCLSTLECA.VALSILEKNNYIQETLL.PL.ALCSFQ..HGAQI.LSK.HLLKNGLYPKPMPKNKRK
Retrocopy PINRCLSTLECAPVALSILEKNNYIQETLLHPLEALCSFQI*HGAQIGLSKQHLLKNGLYPKPMPKNKRK

Parental  LRKMELLMNSVKI
          LRKMELL.NSVKI
Retrocopy LRKMELLKNSVKI

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	0.29 RPM	1.15 RPM
SRP007412_cerebellum	0.39 RPM	1.62 RPM
SRP007412_heart	0.56 RPM	0.50 RPM
SRP007412_kidney	3.48 RPM	2.74 RPM
SRP007412_liver	1.71 RPM	0.76 RPM
SRP007412_testis	0.83 RPM	3.32 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_2167 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2167 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pan troglodytes	retro_ptro_1168

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000014789	1 retrocopy	retro_dnov_2188,
Gorilla gorilla	ENSGGOG00000009599	1 retrocopy	retro_ggor_2167 ,
Pongo abelii	ENSPPYG00000015707	2 retrocopies	retro_pabe_1493, retro_pabe_1494,
Pan troglodytes	ENSPTRG00000017164	1 retrocopy	retro_ptro_1168,