RetrogeneDB ID: retro_ggor_1137

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 15:19662674..19663118(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000012445
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: FAM92A1
• Ensembl ID: ENSGGOG00000006452
• Aliases: None
• Description: None

Sequence

>retro_ggor_1137
CGACATGTTATTTCACAGGCAGAAACGGAATTACAGAGAACTGCAATGGATGCTAGCCGAACAAGTCGTCATCTGGAGGA
AACTATGAACAACTTTGAAAGGCAGAAAATGAAGGATATAAAGACTATATTTTCTGAATTTATCACAATCGAAATGTTAT
TTCACGGCTAAGCTTTAGAGGTCTACATTGCTGCCTACCGGAATATACAAAACATTGATGAAGATGAAGATTTAGAGGTT
TTCCGAAATTCTCTGTATGCACCAGATTATTCATCTTGTTTAGATACTGTAAGAGCGAATTCAAAGTCACCTCTTCAGAG
ATCACTGTCAGCTAAGTGTGTATCTGGAACAAGACAGGTATCCACTTGTCGACTAAGAAAGGATCAACAAGCAGAAGATG
ATGAGGATGAAGAGTTAGATGTTACAGAAGAAGAAAATTTTCTT

Alignment

ORF - retro_ggor_1137 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.59 %
• Parental protein coverage: 51.21 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RHVISQAETELQRAAMDASRTSRHLEETINNFERQKMKDIKTIFSEFITIEMLFHGKALEVYTAAYQNIQ
          RHVISQAETELQR.AMDASRTSRHLEET.NNFERQKMKDIKTIFSEFITIEMLFHG.ALEVY.AAY.NIQ
Retrocopy RHVISQAETELQRTAMDASRTSRHLEETMNNFERQKMKDIKTIFSEFITIEMLFHG*ALEVYIAAYRNIQ

Parental  NIDEDEDLEVFRNSLYAPDYSSRLDIVRANSKSPLQRSLSAKCVSGTGQVSTCRLRKDQQAEDDEDEELD
          NIDEDEDLEVFRNSLYAPDYSS.LD.VRANSKSPLQRSLSAKCVSGT.QVSTCRLRKDQQAEDDEDEELD
Retrocopy NIDEDEDLEVFRNSLYAPDYSSCLDTVRANSKSPLQRSLSAKCVSGTRQVSTCRLRKDQQAEDDEDEELD

Parental  VTEEENFL
          VTEEENFL
Retrocopy VTEEENFL

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	0.24 RPM	8.87 RPM
SRP007412_cerebellum	0.20 RPM	5.71 RPM
SRP007412_heart	0.00 RPM	1.72 RPM
SRP007412_kidney	0.16 RPM	7.77 RPM
SRP007412_liver	0.00 RPM	7.33 RPM
SRP007412_testis	6.84 RPM	164.72 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_1137 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1137 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1485

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Parental genes homology:

Parental genes homology involve 15 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000009105	1 retrocopy	retro_cfam_1072,
Echinops telfairi	ENSETEG00000013003	1 retrocopy	retro_etel_522,
Homo sapiens	ENSG00000188343	1 retrocopy	retro_hsap_1485,
Gorilla gorilla	ENSGGOG00000006452	1 retrocopy	retro_ggor_1137 ,
Loxodonta africana	ENSLAFG00000003954	1 retrocopy	retro_lafr_201,
Microcebus murinus	ENSMICG00000006797	1 retrocopy	retro_mmur_415,
Monodelphis domestica	ENSMODG00000007447	2 retrocopies	retro_mdom_1239, retro_mdom_827,
Mustela putorius furo	ENSMPUG00000009112	1 retrocopy	retro_mputfur_1183,
Nomascus leucogenys	ENSNLEG00000002773	1 retrocopy	retro_nleu_1707,
Otolemur garnettii	ENSOGAG00000002972	1 retrocopy	retro_ogar_654,
Oreochromis niloticus	ENSONIG00000002446	1 retrocopy	retro_onil_57,
Procavia capensis	ENSPCAG00000011171	1 retrocopy	retro_pcap_272,
Pongo abelii	ENSPPYG00000018744	2 retrocopies	retro_pabe_1235, retro_pabe_2497,
Tarsius syrichta	ENSTSYG00000012502	1 retrocopy	retro_tsyr_975,
Tursiops truncatus	ENSTTRG00000012378	1 retrocopy	retro_ttru_45,