RetrogeneDB ID: retro_ggor_2220

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:139523060..139523729(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPIG
• Ensembl ID: ENSGGOG00000003185
• Aliases: None
• Description: None

Sequence

>retro_ggor_2220
ATGGGAATAAAGATTCAATGTCCTCGATTTTTTTTTTTTTGACATTGCCATTAACAACCTGCTGGAAGAGTTGTCTTTGA
ATTATTTTCTGATGTGTGCCCCAAAACATGTGAGAAGTTTAGTTGTCTTTGTACAGGTGAAAAGGGGACAGGGAAATCAA
CTCAGAGCCATTACATTGTAAGAGTTGTCTCTTTCACAGAGTTGTCAAGGATTTTATGGTTTAAGGTGCTGACTTCAGTG
AAGGAAATGGACGAGGAGGGGAATCTATCTAAGAAGGATTTTTTGAAGATGAGAATTTTGCTGTTAAAAACAACAAAGAA
TTTCTCTTGTCAATGGCCAACAGAAGGAAGGATACAAATGGTTTACAGTTCTTCATAACAATGAAACCAACTCTTCATTT
AAATGGGCATCATGTTGTTTTTGGACAAGTAATCTCTAGCCAAGAAGTTGTAAGAGAGATAGAAAACCACAAGATGGATG
CTGCTAGCAAAGCATTTACAGAGGTACAGATACTCAGTTGTGGAGAGCTGATTCCCAAATCTAAAGTTAAGAAAGAAGAA
AAGAAAAGGTATAAATCATCATCATCTTCCTCCTCATCGTCTAGTGACTTAAGATAGCTCAAATGATTCTCAGTTGTCAC
CTGATTCCTGTGATTCTGAAAATGCTTCT

Alignment

ORF - retro_ggor_2220 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.33 %
• Parental protein coverage: 55.89 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MGIKVQRPRCFFDIAINNQPAGRVVFELFSDVCPKTCENFRCLCTGEKGTGKSTQ-KPLHYKSCLFHRVV
          MGIK.Q.PR.........QPAGRVVFELFSDVCPKTCE.F.CLCTGEKGTGKSTQ..PLH.KSCLFHRVV
Retrocopy MGIKIQCPRXXXXXHCH*QPAGRVVFELFSDVCPKTCEKFSCLCTGEKGTGKSTQ<EPLHCKSCLFHRVV

Parental  KDFMVQGGDFSEGNGRGGESIYGGFFEDESFAVKHNKEFLLSMANRGKDTNGSQFFITTKPTPHLDGHHV
          KDFMV.G.DFSEGNGRGGESI..GFFEDE.FAVK.NKEFLLSMANR.KDTNG.QFFIT.KPT.HL.GHHV
Retrocopy KDFMV*GADFSEGNGRGGESI*EGFFEDENFAVKNNKEFLLSMANRRKDTNGLQFFITMKPTLHLNGHHV

Parental  VFGQVISGQEVVREIENQKTDAASKPFAEVRILSCGELIPKSKVKKEEKKRHKSSSSSSSSSSDS-DSSS
          VFGQVIS.QEVVREIEN.K.DAASK.F.EV.ILSCGELIPKSKVKKEEKKR.KSSSSSSSSSSD..DSS.
Retrocopy VFGQVISSQEVVREIENHKMDAASKAFTEVQILSCGELIPKSKVKKEEKKRYKSSSSSSSSSSDL>DSSN

Parental  DSQSSSDSSDSESAT
          DSQ.S.DS.DSE.A.
Retrocopy DSQLSPDSCDSENAS

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	34.53 RPM
SRP007412_cerebellum	0.00 RPM	32.58 RPM
SRP007412_heart	0.00 RPM	9.79 RPM
SRP007412_kidney	0.00 RPM	39.34 RPM
SRP007412_liver	0.00 RPM	20.44 RPM
SRP007412_testis	0.00 RPM	58.22 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_2220 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2220 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000003185	1 retrocopy	retro_ggor_2220 ,
Pan troglodytes	ENSPTRG00000012617	1 retrocopy	retro_ptro_2204,