RetrogeneDB ID: retro_ggor_1996

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 3:171921986..171922787(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KLF7
• Ensembl ID: ENSGGOG00000009338
• Aliases: None
• Description: None

Sequence

>retro_ggor_1996
GAGGAGACATGCCTTGAATTGGAACGCTACCTACAGAAGGAGCCCAGGAGGATCTCGGAGACCTTTGGTGAGGACTTGGC
CTGTTTGCTCCACGCTTCTCCTCCCCGGTGCATTGAGGAAAGCTTCCGTCGCTTAGACCTCCTGCTGCTCCCCGTGGAAG
CGGCCATCTGTCAGAAGAGCTCAGCAGTCTTGCTCTCTCGGGGCAAGTTGCTATCTGAGACCTGCCTCAGCCTCCAGCCG
CCAACTCTTCTCTAGACAGCTACACAGCTGTCAACCAGGTCCAGCTCAACACAATGACCTCATTAATGCCCCCACTGTCC
CCTGAGCTCAGCCACCATCTGGTCAAAACCTCACAAACTCTCTCTGCCGTGGATGGCACGGTGATGTTGAAACTAGTGGC
CAAGAAGGCTGCTCTCATCTCCGTAAAGGTGGGAGGGGTCACAACAGCTTCAGCAGCTGTGATGGTGCCAGGGCCGTTAA
GAGTGGACAGAGCGACAGTGACCAAGGAGGGCTAGGGGCTGAAGCATGTCCTGAAAACAAGAAGAGGGTTCACTGCTGTC
AGTTTAACGGGTGCCAGGAAGTTTATACAAAAAGCTCCCCCTTAAGGCCCATCAGAAGACTCACACAGGTGAGAAGCCTT
ACAGGTACTCATGGGAGGGATGCTAGTGGCGTTTTGCATGAAGCGATGAGCTCACGAGGCACTATGGGAAACACACAGGT
GCAAACCTCTTCAAATGCAACCACTGCGACAGGTGTTTTTCTAGGTCTGACCATCTTGCCCACCCTATGAAGAAACATAT
C

Alignment

ORF - retro_ggor_1996 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.25 %
• Parental protein coverage: 89.4 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QQTCLELERYLQTEPRRISETFGEDLDCFLHASPPPCIEESFRRLDPLLLPVEAAICEKSSAVDILLSRD
          ..TCLELERYLQ.EPRRISETFGEDL.C.LHASPP.CIEESFRRLD.LLLPVEAAIC.KSSAV..LLSR.
Retrocopy EETCLELERYLQKEPRRISETFGEDLACLLHASPPRCIEESFRRLDLLLLPVEAAICQKSSAV--LLSRG

Parental  KLLSETCLSLQP-ASSSLDSYTAVNQAQLNAVTSLTPPSSPELSRHLVKTSQTLSAVDGTVTLKLVAKKA
          KLLSETCLSLQP.A.SSLDSYTAVNQ.QLN..TSL.PP.SPELS.HLVKTSQTLSAVDGTV.LKLVAKKA
Retrocopy KLLSETCLSLQP<ANSSLDSYTAVNQVQLNTMTSLMPPLSPELSHHLVKTSQTLSAVDGTVMLKLVAKKA

Parental  ALSSVKVGGVATAAAAVTAAG-AVKSGQSDSDQGGLGAEACPENKKRVHRCQFNGCRKVYTKSSHL-KAH
          AL.SVKVGGV.TA.AAV...G.AVKSGQSDSDQGGLGAEACPENKKRVH.CQFNGC..VYTKSS.L.KAH
Retrocopy ALISVKVGGVTTASAAVMVPG<AVKSGQSDSDQGGLGAEACPENKKRVHCCQFNGCQEVYTKSSPL<KAH

Parental  QRTHTGEKPYKCSWEGCEWRFARSDELTRHYRKHTGAKPFKCNHCDRCFSRSDHLALHMKRHI
          Q.THTGEKPY..SWEGC.WRFA.SDELTRHY.KHTGA..FKCNHCDRCFSRSDHLA..MK.HI
Retrocopy QKTHTGEKPYRYSWEGC*WRFA*SDELTRHYGKHTGANLFKCNHCDRCFSRSDHLAHPMKKHI

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	8.63 RPM
SRP007412_cerebellum	0.00 RPM	13.51 RPM
SRP007412_heart	0.00 RPM	5.10 RPM
SRP007412_kidney	0.00 RPM	9.81 RPM
SRP007412_liver	0.00 RPM	7.20 RPM
SRP007412_testis	0.00 RPM	15.85 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_1996 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1996 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_2880
Pan troglodytes	retro_ptro_1948
Pongo abelii	retro_pabe_2384

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000118263	1 retrocopy	retro_hsap_2880,
Gorilla gorilla	ENSGGOG00000009338	1 retrocopy	retro_ggor_1996 ,
Nomascus leucogenys	ENSNLEG00000007123	1 retrocopy	retro_nleu_620,
Pongo abelii	ENSPPYG00000013114	1 retrocopy	retro_pabe_2384,
Pan troglodytes	ENSPTRG00000012850	1 retrocopy	retro_ptro_1948,