RetrogeneDB ID: retro_ggor_868

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:42989069..42990705(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000022530
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PLEKHA8
• Ensembl ID: ENSGGOG00000006031
• Aliases: None
• Description: None

Sequence

>retro_ggor_868
GCTGCTGGTGCTCCTCGCCTCCTGGGGCCTTGGGCAATGAGGGGGCCGGTGGGCATGGGCCGAGTGGCCGTGGGCGCCAT
GGAGGGGGTGCTGTACAAGTGGACCAACTATCTGAGCGGTTGGCAGCCTTGATGGTTCCTTCTCTGTGGGGGAATATTGT
CCTATTATGATTCTCCTGAAGATGCCTGGAAAGGTTGCAAAGGGAGCATACAAATGGCAGTCTGTGAAATTGAAGTTCAT
TCTGTAGATAATACATGCATGGACCTGATAATCCCCGGGGAACAGTATTTCTACCTGAAGGCCAGAAGTCTGCCTGAAAG
ATAGCAGCGGCTGGTGGCCCTGGGATCAGCCAAGGCTTGCCTGACTGACAGTAGGACCCAGAAGGATAAAGAGTTTGCTG
AAAACACTGAAAACTTGAAAACCAAAATGTCAGAACTAAGACTCTGCTGTGACCTCCTTGTTCAGCAAGTAGATAAAACA
AAAGAAGTGACCACAACTGGTGTGTACAATTCTGAGGAGGGAATTGATGTGGGAACTTTGCTGAAATCAACCTGTAATAC
TTTTCTGAAGACCTTGGAAGAATGCATGCAGATTGCAAATGCAGCCTTCACCTCTGAGCTGCTCTACCACACTCCACCAG
GATCACCACAGCTGGCCACGCTCAAGTCCAGCAAGATGAAACATCCTATTATACCAATTCATAATTCATTGGAAAGGCAA
ATGGAGTTGAGCACTTGTGAAAATGGATCTTTAAATATGGAAATAAATGGTGAGGAAGAAATCCTAATGAAAAATAAGAA
TTCCTTATATTTGAAATCTGCAGAGATAGACTGCAGCATATCAAGTGAGGAAAATACAGATGATAATATAACCGTCCAAG
GTGAAATAATGAAGGAAGATGGAATGGAAAACCTGAAAAATCATGACAATAACTTGTCTCAGTCTGGATCAGACTCAAGT
TGCTCTCCAGAATGCCTCTGGGAGGAAGGCAAAGAAGTTATCCCAACTTTCTTTAGTACCATGAACACAAGCTTTAGTGA
CATTGAACTTCTGGAAGACAGTAGCATTCCCACAGAAGCATTCTTGGCATCATGTTGTGCTGTGGTTCCAGTATTAAGAC
AAATTTGGCCCTACAGTGTTTGCTCCTGTTAAGATGGATCTTGTTGGAAATATTAAGAAAGTAAATCAGAAGTATATAAC
CAACAAAGAAGAGTTTACCACTCTCCAGAAGATAGTGCTGCATGAAGTGGAGGCGGATGTAGCCCAGGTTAAGAACTCAG
CGACTGAAGCCCTCTTGTGGCTGAAGAGAGGTCTCAAATTTTTGAAGGGATTTTTGACAGAAGTGAAAAATGGGGAAAAG
GATATCCAGACAGCCCTGAATAACGCATATGGTAAAACATTGCGGCAACACCATAGCTGGGTAGTTCGAGGGGTTTTTGC
GTTAGCTTTAAGGGCAACTCCATCCTATGAAGATTTTGTGGCCGCGTTAACCATAAAGGAAGGTGACCACCAGAAAAAAG
CTTTCAGTATTGGGATGCAGAGGGACCTCAGCCTTTACCTCCCTGCCATGGAGAAGCAGATGGCCATACTGGACGCTTTA
TAAGAGGTCCATGGGCTGGAATCTGATGAGGTGGTA

Alignment

ORF - retro_ggor_868 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.77 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AAGAPRLLGPGAVRGPAGVGRVAAGAMEGVLYKWTNYLSGWQPRWFLLCGGILSYYDSPEDAWKGCKGSI
          AAGAPRLLGP.A.RGP.G.GRVA.GAMEGVLYKWTNYLSGWQP.WFLLCGGILSYYDSPEDAWKGCKGSI
Retrocopy AAGAPRLLGPWAMRGPVGMGRVAVGAMEGVLYKWTNYLSGWQP*WFLLCGGILSYYDSPEDAWKGCKGSI

Parental  QMAVCEIQVHSVDNTRMDLIIPGEQYFYLKARSVAERQRWLVALGSAKACLTDSRTQKEKEFAENTENLK
          QMAVCEI.VHSVDNT.MDLIIPGEQYFYLKARS..ER...LVALGSAKACLTDSRTQK.KEFAENTENLK
Retrocopy QMAVCEIEVHSVDNTCMDLIIPGEQYFYLKARSLPER*QRLVALGSAKACLTDSRTQKDKEFAENTENLK

Parental  TKMSELRLYCDLPVQQVDKTKEVTTTGVSNSEEGIDVGTLLKSTCNTFLKTLEECMQIANAAFTSELLYR
          TKMSELRL.CDL.VQQVDKTKEVTTTGV.NSEEGIDVGTLLKSTCNTFLKTLEECMQIANAAFTSELLY.
Retrocopy TKMSELRLCCDLLVQQVDKTKEVTTTGVYNSEEGIDVGTLLKSTCNTFLKTLEECMQIANAAFTSELLYH

Parental  TPPGSPQLAMLKSSKMKHPIIPIHNSLERQMELSTCENGSLNMEINGEEEILMKNKNSLYLKSAEIDCSI
          TPPGSPQLA.LKSSKMKHPIIPIHNSLERQMELSTCENGSLNMEINGEEEILMKNKNSLYLKSAEIDCSI
Retrocopy TPPGSPQLATLKSSKMKHPIIPIHNSLERQMELSTCENGSLNMEINGEEEILMKNKNSLYLKSAEIDCSI

Parental  SSEENTVDNITVQGEIRKEDGMENLKNHDNNLTQSGSDSSCSPECLWEEGKEVIPTFFSTMNTSFSDIEL
          SSEENT.DNITVQGEI.KEDGMENLKNHDNNL.QSGSDSSCSPECLWEEGKEVIPTFFSTMNTSFSDIEL
Retrocopy SSEENTDDNITVQGEIMKEDGMENLKNHDNNLSQSGSDSSCSPECLWEEGKEVIPTFFSTMNTSFSDIEL

Parental  LEDSGIPTEAFLASCYAVVPVL-DKLGPTVFAPVKMDLVGNIKKVNQKYITNKEEFTTLQKIVLHEVEAD
          LEDS.IPTEAFLASC.AVVPVL.DK.GPTVFAPVKMDLVGNIKKVNQKYITNKEEFTTLQKIVLHEVEAD
Retrocopy LEDSSIPTEAFLASCCAVVPVL>DKFGPTVFAPVKMDLVGNIKKVNQKYITNKEEFTTLQKIVLHEVEAD

Parental  VAQVRNSATEALLWLKRGLKFLKGFLTEVKNGEKDIQTALNNAYGKTLRQHHGWVVRGVFALALRAAPSY
          VAQV.NSATEALLWLKRGLKFLKGFLTEVKNGEKDIQTALNNAYGKTLRQHH.WVVRGVFALALRA.PSY
Retrocopy VAQVKNSATEALLWLKRGLKFLKGFLTEVKNGEKDIQTALNNAYGKTLRQHHSWVVRGVFALALRATPSY

Parental  EDFVAALTVKEGDHQKEAFSIGMQRDLSLYLPAMEKQLAILDTLYEVHGLESDEVV
          EDFVAALT.KEGDHQK.AFSIGMQRDLSLYLPAMEKQ.AILD.L.EVHGLESDEVV
Retrocopy EDFVAALTIKEGDHQKKAFSIGMQRDLSLYLPAMEKQMAILDAL*EVHGLESDEVV

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	0.72 RPM	5.23 RPM
SRP007412_cerebellum	0.43 RPM	5.79 RPM
SRP007412_heart	0.72 RPM	0.94 RPM
SRP007412_kidney	2.17 RPM	6.38 RPM
SRP007412_liver	0.66 RPM	3.01 RPM
SRP007412_testis	1.04 RPM	9.01 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_868 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_868 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000106086	1 retrocopy	retro_hsap_1110,
Gorilla gorilla	ENSGGOG00000006031	1 retrocopy	retro_ggor_868 ,
Pongo abelii	ENSPPYG00000017682	1 retrocopy	retro_pabe_919,
Pan troglodytes	ENSPTRG00000019036	1 retrocopy	retro_ptro_688,