RetrogeneDB ID: retro_ggor_2619

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:110529107..110530203(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MIPEP
• Ensembl ID: ENSGGOG00000009424
• Aliases: None
• Description: None

Sequence

>retro_ggor_2619
AATTCTCAAAGTTCCAAAGTAATGCCTTGGGACCCCCGCTACCAGAGTGGTGTGATTCATGCACAAAGGTATAATATTGA
CCCTGGCTTATATTGCCTGTTTTTCTCCCTTGGAGCATGCATGGAAGGCCTGAATATTTGGCTTAACAAACTGTTGGAGA
TTTCCTTATATGCAGAGTAGCCTACAAAAGGAGAGGTATGGTGTGAAGATGTCCGAAAACTGGCCATCATTCATGAATCT
GAAGGACTGTTGGGGTGCATTTACTTCGATTTTTTTCAGCAAGCAGACAAACCCATCAGGATTGCCATTTTCCAATCCAC
GGAGGCAGATTAAAGGAAGACAGAGACTATCAACTCCCAGTCATAGTTCTTATGCTGAATCTTCCCCATTCCTCAAGGAG
TTCACAAACTTTGCTAACTCCTGGAATGATGGAAAATCTTGACCATGAAATGGGACATGCTATGCATTCAATGCTAGGAC
GTACTTGTTACCAACACATCACCGGAACCAGGTGCCCCATTGATTTTGCAGGGGTTCCTTCTATTCTAATAGAGTACTTT
GCAAATGATTATTGAGTAACCAGTTTGCCAGACAAAATTAGAATGGGCATCCACTGCCAAAAAAATATGGTGTCTCAGCT
TTCTGAATCTAAAAAGGTTTGTGCTGCAGCTGATATGAAACTTCAGGTCTTTTATGCCCCTCAGGATCAAATCTACCATA
GGAAGCATCCCCTGAGGAATTCAACCACAGACATTCTCAAGGAAACACAAGAGACATTCTGTGGCTTACCATATGTTCCA
AATACTGCCTGGAAGCTGTGGATCACCTACCTCATGGGCTATAGGACCAAATATTACTCTTACCTCATGTCTAGGGCAGT
CACTTCCATGGTTTGGAAGGAATGTTTTCTACAAAATCCTTTTAACAGGGCCACATGGAGTGCTATTGCAGGGAGATGCT
GGCCCACAGTGGAGGCAAGAAGCCCATGCTCATGGTTGAAGGTGTGCTTCAAAAGTGCCCTTCTATTGATTACTTTGTAA
GTGCCCTTGTTTCTGACTTGGATCTGGACTTTGAAACTTTTGTCATGGATTCTGAA

Alignment

ORF - retro_ggor_2619 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.59 %
• Parental protein coverage: 51.47 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NPQNSEVMPWDPPYYSGVIRAERYNIEPSLYCPFFSLGACMEGLNILLNRLLGISLYAEQPAKGEVWSED
          N.Q.S.VMPWDP.Y.SGVI.A.RYNI.P.LYC.FFSLGACMEGLNI.LN.LL.ISLYAE.P.KGEVW.ED
Retrocopy NSQSSKVMPWDPRYQSGVIHAQRYNIDPGLYCLFFSLGACMEGLNIWLNKLLEISLYAE*PTKGEVWCED

Parental  VRKLAVVHESEGLLGYIYCDFFQRADKP-HQDCHFTIRGGRLKEDGDYQLPVVVLMLNLPRSSRSSPTLL
          VRKLA..HESEGLLG.IY.DFFQ.ADKP.HQDCHF.I.GGRLKED.DYQLPV.VLMLNLP.SSRSS.TLL
Retrocopy VRKLAIIHESEGLLGCIYFDFFQQADKP<HQDCHFPIHGGRLKEDRDYQLPVIVLMLNLPHSSRSSQTLL

Parental  TPGMMENLFHEMGHAMHSMLGRTRYQHVTGTRCPTDFAEVPSILMEYFANDYRVVNQFARHYQTGQPLPK
          TPGMMENL.HEMGHAMHSMLGRT.YQH.TGTRCP.DFA.VPSIL.EYFANDY.V..........G....K
Retrocopy TPGMMENLDHEMGHAMHSMLGRTCYQHITGTRCPIDFAGVPSILIEYFANDY*VTS-LPDKIRMGIHCQK

Parental  NMVSRLCESKKVCAAADMQLQVFYATLDQIYHGKHPLRNSTTDILKETQEKFYGLPYVPNTAWQLRFSHL
          NMVS.L.ESKKVCAAADM.LQVFYA..DQIYH.KHPLRNSTTDILKETQE.F.GLPYVPNTAW.L....L
Retrocopy NMVSQLSESKKVCAAADMKLQVFYAPQDQIYHRKHPLRNSTTDILKETQETFCGLPYVPNTAWKLWITYL

Parental  VGYGAKYYSYLMSRAVASMVWKECFLQDPFNRAAG-ERYRREMLAHGGGREPMLMVEGMLQKCPSVDDFV
          .GY..KYYSYLMSRAV.SMVWKECFLQ.PFNRA...E.Y.REMLAH.GG..PMLMVEG.LQKCPS.D.FV
Retrocopy MGYRTKYYSYLMSRAVTSMVWKECFLQNPFNRATW<ECYCREMLAHSGGKKPMLMVEGVLQKCPSIDYFV

Parental  SALVSDLDLDFETFLMDSE
          SALVSDLDLDFETF.MDSE
Retrocopy SALVSDLDLDFETFVMDSE

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	6.76 RPM
SRP007412_cerebellum	0.00 RPM	5.08 RPM
SRP007412_heart	0.00 RPM	14.98 RPM
SRP007412_kidney	0.00 RPM	27.19 RPM
SRP007412_liver	0.00 RPM	9.79 RPM
SRP007412_testis	0.00 RPM	21.55 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_2619 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2619 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3891
Pongo abelii	retro_pabe_3172
Macaca mulatta	retro_mmul_1732

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000027001	1 retrocopy	retro_hsap_3891,
Gorilla gorilla	ENSGGOG00000009424	1 retrocopy	retro_ggor_2619 ,
Macaca mulatta	ENSMMUG00000006942	1 retrocopy	retro_mmul_1732,
Nomascus leucogenys	ENSNLEG00000013401	1 retrocopy	retro_nleu_1131,
Pongo abelii	ENSPPYG00000005207	1 retrocopy	retro_pabe_3172,
Sus scrofa	ENSSSCG00000009290	1 retrocopy	retro_sscr_415,
Sus scrofa	ENSSSCG00000025544	1 retrocopy	retro_sscr_414,