RetrogeneDB ID: retro_ggor_2668

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:72045049..72045785(+)
• Located in intron of: ENSGGOG00000026508

Retrocopy information

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

Parental gene information

• Parental gene symbol: VENTX
• Ensembl ID: ENSGGOG00000003340
• Aliases: None
• Description: None

Sequence

>retro_ggor_2668
ATGCGTCCCTCCTCCTCCCCACCTTGCGGCCGGCAGCAGCCCTCTAGCTTTGGCTCCGTGGACTGGCTCTCCCAAAGCAG
CTGCTCAGGGCCGACCCACACCCCCAGGCCTGCCGAGGTCTCCCTGGGGAGCCTCCCTGGCCCGGACCAGGCATCCGGCC
CCGAAGAGCCCCCTCACGCCGTCAGCATCAAGGAGGCTAGGTCCTCAAATCTGCCTCCGCCAGAGAGGGCCATGGCTGGG
TTGAGGAAAGGGCCAAACGCCTGGCGGGCCCACTGTGTCCACACAGCCTTCACCACGGAGCAGGTCCGTGGCTTGGAGGG
CATCTTCCGGCACCACCAGTACCTGGGCCCTCTGGAGTGGAAGAGGCTGGCCAGGGAAATGCAGCTGTCGGAGGTTCAGA
TAAAAACCTGGTTTCAAAATCGCCACATGAAACACGAACGGCAAATGCAGGACTCCCAGCTGAACAGCCCCTTCTCGGAG
TCACTGCACGCACCCCTGGCTTTCCACTCACCGTCTTCTGGCCTTGCCAATGGCCTGCACCTGCTGTGCCCTTGGGCACC
CCTGCCTGGGCCCCAGACTCTGATGCTGTCCCCTGGCTCCTTCTGGGGTCTCTGCCAAGTGGAACAAGAGGCCCTGGCCT
CTGAGTGGGCCTCCTGCTGTGGGCAGCCTCTGGCGTACCACCCCCCAAAGCCCAGGAAGTGGCATGCATACGCTGGGACC
AGCCCTGTCCACGGGG

Alignment

ORF - retro_ggor_2668 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.97 %
• Parental protein coverage: 94.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MRLSSSPPRGRQQLSSFGSVDWLSQSSCSGPTHTPRPADFSLGSLPGPGQTSGAREPPQAVSIKEAARSS
          MR.SSSPP.GRQQ.SSFGSVDWLSQSSCSGPTHTPRPA..SLGSLPGP.Q.SG..EPP.AVSIKEA.RSS
Retrocopy MRPSSSPPCGRQQPSSFGSVDWLSQSSCSGPTHTPRPAEVSLGSLPGPDQASGPEEPPHAVSIKEA-RSS

Parental  NLPAPERTVAGLSKEPNTLRAPRVRTAFTMEQVRTLEGVFQHHQYLSPLERKRLAREMQLSEVQIKTWFQ
          NLP.PER..AGL.K.PN..RA..V.TAFT.EQVR.LEG.F.HHQYL.PLE.KRLAREMQLSEVQIKTWFQ
Retrocopy NLPPPERAMAGLRKGPNAWRAHCVHTAFTTEQVRGLEGIFRHHQYLGPLEWKRLAREMQLSEVQIKTWFQ

Parental  NRRMKHKRQMQDPQLHSPFSGSLHAPPAFYSPSSGLPNGLQLLCSWAPLPRPQALMLPPGSFWGLCRVGQ
          NR.MKH.RQMQD.QL.SPFS.SLHAP.AF.SPSSGL.NGL.LLC.WAPLP.PQ.LML.PGSFWGLC.V.Q
Retrocopy NRHMKHERQMQDSQLNSPFSESLHAPLAFHSPSSGLANGLHLLCPWAPLPGPQTLMLSPGSFWGLCQVEQ

Parental  EALASAWASCYGQPLAYHPP-SPGSGVHPLGPALSTG
          EALAS.WASC.GQPLAYHPP.SPGSG.H.LGPALSTG
Retrocopy EALASEWASCCGQPLAYHPP>SPGSGMHTLGPALSTG

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	0.05 RPM
SRP007412_cerebellum	0.04 RPM	0.00 RPM
SRP007412_heart	0.09 RPM	0.16 RPM
SRP007412_kidney	0.00 RPM	0.20 RPM
SRP007412_liver	0.00 RPM	0.53 RPM
SRP007412_testis	0.00 RPM	0.21 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_2668 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2668 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000151650	4 retrocopies	retro_hsap_1027, retro_hsap_2612, retro_hsap_3973, retro_hsap_4038,
Gorilla gorilla	ENSGGOG00000003340	3 retrocopies	retro_ggor_1830, retro_ggor_2668 , retro_ggor_2708,
Macaca mulatta	ENSMMUG00000000543	2 retrocopies	retro_mmul_1477, retro_mmul_2294,
Nomascus leucogenys	ENSNLEG00000002047	5 retrocopies	retro_nleu_2033, retro_nleu_2054, retro_nleu_635, retro_nleu_664, retro_nleu_905,
Pan troglodytes	ENSPTRG00000003087	4 retrocopies	retro_ptro_1761, retro_ptro_2698, retro_ptro_2736, retro_ptro_702,