RetrogeneDB ID: retro_ggor_2566

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 7:158031919..158032735(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PIP5K1A
• Ensembl ID: ENSGGOG00000026610
• Aliases: None
• Description: None

Sequence

>retro_ggor_2566
ATGGCCGTCGGTCTCCTCAGGGCCTCCCCGGCGGTCAGTTTTTCATCCTTTGATCCAGGGGTCGCTTCCTGTACCTCGTC
CTCAGCATCTGGAATCAAGAGACCTATGGCGTCTGAGGTGCCTTGTGCCTCGGGCATACCCATCAAGAAAACAGGCCATC
GAGGTGTTGATTCCTCAGGAGAGACAACCTGTAGAAAGACGACCTCATCAGCCTTGAAATGTGCCATCCAGTTGGGCGTT
ACTCACACTGTGGGGAGCCTGGATCCCACACCAGAGCGTCATGTCCTCATGTAAGATTTCTGCGTGGTGGAGAATATCTT
CTTTCCCAGTGGAGGGAGCAACCTGACCCCTGCTCATCACTGCAGTGAGTTTCCTTTCAAGACCTATACACCTGTTGCCT
TCTGCTACTTTCAGGAGCTGTTTGGTATCTGCCCTGATGATGACTTGTACTCCCTCTGCAGTGAGCCACTGATTGAACTC
AGTAGCTCTGGAGCTGATGGTTCCCTGTTATATGTGTCCATCCACGATGAATTCATTATTAAAACAGTCCAACATAAAGA
GGCGGAGTTTCTGCAGAAGCTGCTTCCAGGATGCCACATCGACCTCAACCAGAACCCTTGGACTTTGCTGCCTAAATTCT
ATGGACTGTGCTGTGTGCAGGCAGGCGGCGGCAAGAACACGCAGATTGTGGTGATGAAGAATCTCTTACTAAGACTGGTC
AAAATGCATACCAAATATGACTTCAAAAGTTCAACCTACAAAAAGCAGGCTTCCCAGAAAGAGCAAGAGAAGCCTCTTCC
CACATTTTCCCACATT

Alignment

ORF - retro_ggor_2566 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.26 %
• Parental protein coverage: 52.32 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASASSQPSLAVGFSSFDPGAPSCTASSASGIMSPTASEVPYASGMPIKKTGHRGVDSSGETTYKKTTST
          MA......S.AV.FSSFDPG..SCT.SSASGI..P.ASEVP.ASG.PIKKTGHRGVDSSGETT..KTTS.
Retrocopy MAVGLLRASPAVSFSSFDPGVASCTSSSASGIKRPMASEVPCASGIPIKKTGHRGVDSSGETTCRKTTSS

Parental  ALKGAIQLGITYTVGSLSTKPERDVLMQDFYVVESIFFPSEGSNLTPAHHYNDFRFKTYAPVAFRYFREL
          ALK.AIQLG.T.TVGSL...PER.VLM.DF.VVE.IFFPS.GSNLTPAHH...F.FKTY.PVAF.YF.EL
Retrocopy ALKCAIQLGVTHTVGSLDPTPERHVLM*DFCVVENIFFPSGGSNLTPAHHCSEFPFKTYTPVAFCYFQEL

Parental  FGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDELIIKTLQHKEAEFLQKLLPGYYLNLSQNPRTLL
          FGI.PDD.LYSLCSEPLIEL.SSGA.GSL.YVS..DE.IIKT.QHKEAEFLQKLLPG....L.QNP.TLL
Retrocopy FGICPDDDLYSLCSEPLIELSSSGADGSLLYVSIHDEFIIKTVQHKEAEFLQKLLPGCHIDLNQNPWTLL

Parental  PKFFGLYCVQT-GGKNIRIVVMNNLLPRSVKMHIKYDLKGSTYKRRASQKEREKPLPTFKDL
          PKF.GL.CVQ..GGKN..IVVM.NLL.R.VKMH.KYD.K.STYK..ASQKE.EKPLPTF...
Retrocopy PKFYGLCCVQAGGGKNTQIVVMKNLLLRLVKMHTKYDFKSSTYKKQASQKEQEKPLPTFSHI

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	0.10 RPM	2.97 RPM
SRP007412_cerebellum	0.08 RPM	2.05 RPM
SRP007412_heart	0.03 RPM	0.53 RPM
SRP007412_kidney	0.00 RPM	1.59 RPM
SRP007412_liver	0.00 RPM	0.71 RPM
SRP007412_testis	0.31 RPM	14.81 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_2566 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2566 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Pongo abelii	retro_pabe_3112

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000026610	2 retrocopies	retro_ggor_2566 , retro_ggor_606,
Otolemur garnettii	ENSOGAG00000002846	1 retrocopy	retro_ogar_1855,