RetrogeneDB ID: retro_ggor_2299

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 5:142039892..142040683(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000023556
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ENSG00000105401
• Ensembl ID: ENSGGOG00000008098
• Aliases: None
• Description: None

Sequence

>retro_ggor_2299
AACGTGGACACGCTTAGCAAAGACGGCTTCAGCAAGAGCATGGTCAACACCAAGCCCGAGAAGATGGAGGAGGACTCAGA
GGAGGTGAGGGAGAAGAAACACAAGACCTTCGTGGAAAAGTGCGAGAAACAGACCAAGCACTTTGGCATGCTCGCCACTG
GGATGACAGCCAAGAGTGCCTGTCGGACAACGTCCACCTGGTGTGCGAGGAGACAGCCAATTACTTGGTCATCTGGTGCA
TTGATCTAGAGGTGGTGGAGAAATGTGCACTCATGGAGCAGGTGGTCCCCCAGACAATCGTCATGCAGTTTATCCTGGAG
CTGGCCAAGAGCCTGAAGGTGGACCCCTGGGCCTGCTTCCGGCAGTTCTTCACTGAGATTAGGACAGCCGATCGCCAGTA
CATGGAGGGCTTCAACGACGAGCTGGAAACCTTCAAAGAGCATGTGCTGGGCCGTGCCAAGCCGCCCATCAAGAAGGCCA
TGAAGGAGTACGAGGAGAAGGAGCGCCAGAAGTGGCTTGGCCCTGACGGCCTGGACCCCATCGAGGTCTACGAGTCCCTC
CCCGAGGAACTCCAGAAGTGCTTCCATGTGAAAGACGTGCAGATGCTGCAAGATGCCATCAGCAAGACGGACCCCACCGA
CGCGAAGTACCACATGCAGCGCTGCTTTGACTCTGGCCTCTGGGTCCCCAACTCTAAGGCCAGCCAGGCCAAAGTGGGAG
AGAAGGCGGGTCCCGGGGACCCGCTGCTGGAAGCTGTTCCCAAGATGGGCAATGAGAAGGATGTCGGTGTG

Alignment

ORF - retro_ggor_2299 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.83 %
• Parental protein coverage: 92.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NIDTASLFRWRHQSMVNTKPEKTEEDSEEVREQKHKTFVEKYEKQIKHFGML-RRWDDSQKYLSDNVHLV
          N.DT.S.......SMVNTKPEK.EEDSEEVRE.KHKTFVEK.EKQ.KHFGML.R.WDDSQ..LSDNVHLV
Retrocopy NVDTLSKDGFS-KSMVNTKPEKMEEDSEEVREKKHKTFVEKCEKQTKHFGML<RHWDDSQECLSDNVHLV

Parental  CEETANYLVIWCIDLEVEEKCALMEQVAHQTIVMQFILELAKSLKVDPRACFRQFFTKIKTADRQYMEGF
          CEETANYLVIWCIDLEV.EKCALMEQV..QTIVMQFILELAKSLKVDP.ACFRQFFT.I.TADRQYMEGF
Retrocopy CEETANYLVIWCIDLEVVEKCALMEQVVPQTIVMQFILELAKSLKVDPWACFRQFFTEIRTADRQYMEGF

Parental  NDELEAFKERVRGRAKLRIEKAMKEYEEEERKKRLGPGGLDPVEVYESLPEELQKCFDVKDVQMLQDAIS
          NDELE.FKE.V.GRAK..I.KAMKEYEE.ER.K.LGP.GLDP.EVYESLPEELQKCF.VKDVQMLQDAIS
Retrocopy NDELETFKEHVLGRAKPPIKKAMKEYEEKERQKWLGPDGLDPIEVYESLPEELQKCFHVKDVQMLQDAIS

Parental  KMDPTDAKYHMQRCIDSGLWVPNSKASEAKEGEEAGPGDPLLEAVPKTGDEKDVSV
          K.DPTDAKYHMQRC.DSGLWVPNSKAS.AK.GE.AGPGDPLLEAVPK.G.EKDV.V
Retrocopy KTDPTDAKYHMQRCFDSGLWVPNSKASQAKVGEKAGPGDPLLEAVPKMGNEKDVGV

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	15.73 RPM	132.88 RPM
SRP007412_cerebellum	8.83 RPM	81.75 RPM
SRP007412_heart	8.54 RPM	92.84 RPM
SRP007412_kidney	8.95 RPM	78.14 RPM
SRP007412_liver	5.09 RPM	63.25 RPM
SRP007412_testis	13.68 RPM	89.10 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_2299 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2299 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000009437	1 retrocopy	retro_fcat_1338,
Homo sapiens	ENSG00000105401	1 retrocopy	retro_hsap_3396,
Gorilla gorilla	ENSGGOG00000008098	1 retrocopy	retro_ggor_2299 ,
Macropus eugenii	ENSMEUG00000002278	1 retrocopy	retro_meug_1373,
Macaca mulatta	ENSMMUG00000003111	1 retrocopy	retro_mmul_2113,
Pongo abelii	ENSPPYG00000009551	1 retrocopy	retro_pabe_2790,
Ictidomys tridecemlineatus	ENSSTOG00000015962	1 retrocopy	retro_itri_328,
Tursiops truncatus	ENSTTRG00000009560	1 retrocopy	retro_ttru_1073,