RetrogeneDB ID: retro_ggor_606

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 10:107201925..107203269(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000004954
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

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

Sequence

>retro_ggor_606
GAGACAACCTCATCAGCCTTGAAAGGTGCCATCCAGTTAGGCATTACCCACACTGTGGGGAGCCTGAGTACCAAACCAGA
GAGTGATGTCCTCATGCAAGATTTCCACATGGTGGAGAGTACCTTCTTTCCCAGTGAAGGGAGCAACCTGACCCCTGCTC
ATCACTACAATGACTTTCGTTTCAAGACCTATGCACCTGTTGCCTTCCGCTACTTCTGGAAGCTATTTGGTATCCGGCCC
GATGATTACTTGTATTCCCTCTGCAGTGAGCCGCTGATTGAACTCTGTAGCTCTGGAGCTAGTGGTTCCCTGTTCTATGT
GTCCAGCGACGATGAGTTCATTATTAAGACAGTCTGACATAAAGAGGCGGAGTTTCTGCAGAAGCTGCTTCCAGGATACT
ACATAAACCTCAACCAGAACCCTCGGACTTTGCTGCCTAAATTCTATGGACTGTACTGTGTGCAGGCAGGTGGCAAGAAC
ATTCGGATTGTGGTGATGAACAATCTTTCACCAAGATCGGTAAAAATGCATATCAAATATGACCTCAAAGGCTCAACGTA
CAAACGGCGGGCTTCCCAGAAAGAGCGAGAGAAGCCTCTTCCCACATTTAAAGACCTAGACTTCTTACAAGACATCCCTG
ATGGTCTTTTTTTGGATGCTGACGTGCACAACGCTCTCTGTAAGACCCTGCAGCGTGACTGTTTGGTGCTGCAGAGCTTC
AAGATAATGGATTATAGCCTCTTGATGTCAATCCATAATATAGATCAGGCACAACGAGAGCCCTTAAGCAGCGAAACACA
ATACTCAGTTGATACTCGAAGACCAGCCCCCCAAAAGGCTCTGTATTCCACAGCCATGGAATCCATCCAGGGAGAGGCTC
GACGGGGTGGCACCATGGAGACCGATGACCATATGGGTGGCATCCCTGCCCGGAATAGTAAAGGGGAAAGGCTTCTGCTT
TATATTGGCATCATTGACATTCTACAGTCTTACAGGTTTGTTAAGAAGTTGGAGCACTCTTGGAAAGCCCTGGTACATGA
TGGAGACACTGTCTCAGTGCATCGCCCAGGCTTCTATGCTGAATGGTTCCAGCGCTTCATGTGCAACACAGTATTTAAGA
AGATTCCCTTGAAGCCTTCTCCTTCCAAAAAACTTTGGTCTGGCTCATCTTTCTCTCAGCGAGCAGGCTCCAGTGGCAAC
TCCTGCATGACTTACCAGCCATTGGTCTCTGGGGAACACAAGGCACAAGTGACAACAAAGGCGGAAGTGGAGCCAGGCGT
TCACCTTGGTCGTCCTGATGTTTTACCTCAGACTCCACCTTTGGAGGAAATCAGTGAGGGCTCA

Alignment

ORF - retro_ggor_606 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.97 %
• Parental protein coverage: 86.68 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KTTSTALKGAIQLGITYTVGSLSTKPERDVLMQDFYVVESIFFPSEGSNLTPAHHYNDFRFKTYAPVAFR
          .TTS.ALKGAIQLGIT.TVGSLSTKPE.DVLMQDF..VES.FFPSEGSNLTPAHHYNDFRFKTYAPVAFR
Retrocopy ETTSSALKGAIQLGITHTVGSLSTKPESDVLMQDFHMVESTFFPSEGSNLTPAHHYNDFRFKTYAPVAFR

Parental  YFRELFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDELIIKTLQHKEAEFLQKLLPGYYLNLSQN
          YF..LFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDE.IIKT..HKEAEFLQKLLPGYY.NL.QN
Retrocopy YFWKLFGIRPDDYLYSLCSEPLIELCSSGASGSLFYVSSDDEFIIKTV*HKEAEFLQKLLPGYYINLNQN

Parental  PRTLLPKFFGLYCVQTGGKNIRIVVMNNLLPRSVKMHIKYDLKGSTYKRRASQKEREKPLPTFKDLDFLQ
          PRTLLPKF.GLYCVQ.GGKNIRIVVMNNL.PRSVKMHIKYDLKGSTYKRRASQKEREKPLPTFKDLDFLQ
Retrocopy PRTLLPKFYGLYCVQAGGKNIRIVVMNNLSPRSVKMHIKYDLKGSTYKRRASQKEREKPLPTFKDLDFLQ

Parental  DIPDGLFLDADMYNALCKTLQRDCLVLQSFKIMDYSLWLSIHNIDHAQREPLSSDTLQVSIDTQRLAPQK
          DIPDGLFLDAD..NALCKTLQRDCLVLQSFKIMDYSL..SIHNID.AQREPLSS.T.Q.S.DT.R.APQK
Retrocopy DIPDGLFLDADVHNALCKTLQRDCLVLQSFKIMDYSLLMSIHNIDQAQREPLSSET-QYSVDTRRPAPQK

Parental  ALYSTAMEFIQGEARLGDTMEADDHMGGIPAQNSKGERLLLYIGIIDILQSYTFLKKLEHSWKAVVHDGD
          ALYSTAME.IQGEAR.G.TME.DDHMGGIPA.NSKGERLLLYIGIIDILQSY.F.KKLEHSWKA.VHDGD
Retrocopy ALYSTAMESIQGEARRGGTMETDDHMGGIPARNSKGERLLLYIGIIDILQSYRFVKKLEHSWKALVHDGD

Parental  TVSVHRPGFYAERFQHFMCNAVFKKIPLKPSPSKKFRSGLSFSPHTGSSGNSCITYQPLVSEEYKSQVIT
          TVSVHRPGFYAE.FQ.FMCN.VFKKIPLKPSPSKK..SG.SFS...GSSGNSC.TYQPLVS.E.K.QV.T
Retrocopy TVSVHRPGFYAEWFQRFMCNTVFKKIPLKPSPSKKLWSGSSFSQRAGSSGNSCMTYQPLVSGEHKAQVTT

Parental  KVQVEPGVHLGRSDVLPQNPPLEEISEGS
          K..VEPGVHLGR.DVLPQ.PPLEEISEGS
Retrocopy KAEVEPGVHLGRPDVLPQTPPLEEISEGS

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	1.25 RPM	2.97 RPM
SRP007412_cerebellum	1.38 RPM	2.05 RPM
SRP007412_heart	0.28 RPM	0.53 RPM
SRP007412_kidney	1.35 RPM	1.59 RPM
SRP007412_liver	0.61 RPM	0.71 RPM
SRP007412_testis	4.87 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_606 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_606 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_716
Pan troglodytes	retro_ptro_511
Pongo abelii	retro_pabe_619

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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,