RetrogeneDB ID: retro_ggor_969

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 13:872487..873233(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000025644
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MRPL3
• Ensembl ID: ENSGGOG00000011128
• Aliases: None
• Description: None

Sequence

>retro_ggor_969
TTGGCCTTGAAGCTGGGCATGATGCCTTTATGGACCAAGGATGGTCAAAAGCACGTGGTCACATTACTTCAGGTACAAGA
CTGTCATGTCCTAAAATATACTTCAAAGGAAAACCGTAATGGAAAAACTGCAGCCCTGTTTGTAGGAGGCAAACTGTATC
ACGTTTTCATAAAGCTACACCTGTATTGGAATTTTACTGAGAACTTGGATTGCCATCAAAACAGACAGTTATAATCTTTA
ATGTAACAGATAATGCTGCAATTAAACCAGGCACTCCTCTTTATGCTGCTGACTTTCATCCAGGACAGTATGTGGATGTC
ACAGCCAAAACTATTGGTAAAGGTTTTCAAGGTGTCATGAAAAGATGGGGATTTAAAGGCCAGCCTGCTACACATGGTCA
AACGAAAACCCACAGGAGACCTGAAGCTATTTCAACTGGTGACATTGGCAGAGTCTGGCCTGGAACTAAAATGCCTGGAA
AAATGGGAAACATATATAGAACAGTATATGGACTGAAAGTGTGGAGAATAAACACAAAGCACAACATAATCTATGTAAAT
GGCTCTGTACCTGGACATAAAAATTGCTTAGTAAGGGTCAGAGGTTCTAAACTGCCTGTATATAAGGATCTCGGTAAAAA
TCTACCATTCCCTATCTATTTTCCTGATGGAGATGAGGAGGAACTACCAGAAGACTTGTATGATGAAAACGTGTGTCAGC
CTAGTGTGCCTTCTATTATGTTTGCC

Alignment

ORF - retro_ggor_969 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.8 %
• Parental protein coverage: 71.55 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IALKLGMMPLWTKDGQKHVVTLLQVQDCHVLKYTSKENHNGKMATLSVGGK-TVSRFRKATSILEFYREL
          .ALKLGMMPLWTKDGQKHVVTLLQVQDCHVLKYTSKEN.NGK.A.L.VGGK.TVSRF.KAT..LEFY.EL
Retrocopy LALKLGMMPLWTKDGQKHVVTLLQVQDCHVLKYTSKENRNGKTAALFVGGK<TVSRFHKATPVLEFY*EL

Parental  GLPPKQTVKIFNITDNAAIKPGTPLYAAHFRPGQYVDVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTHR
          GLP.KQTV.IFN.TDNAAIKPGTPLYAA.F.PGQYVDVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTHR
Retrocopy GLPSKQTVIIFNVTDNAAIKPGTPLYAADFHPGQYVDVTAKTIGKGFQGVMKRWGFKGQPATHGQTKTHR

Parental  RPGAVATGIYCLVGEGNACMHTRKNVAHREISSVYWNIVVIYNRIYLYGSVPGHKNCLVKVKDSKLPAYK
          RP.A..TG....V..G........N..........W.I....N.IY..GSVPGHKNCLV.V..SKLP.YK
Retrocopy RPEAISTGDIGRVWPGTKMPGKMGNIYRTVYGLKVWRINTKHNIIYVNGSVPGHKNCLVRVRGSKLPVYK

Parental  DLGKNLPFPTYFPDGDEEELPEDLYDENVCQPGAPSITFA
          DLGKNLPFP.YFPDGDEEELPEDLYDENVCQP..PSI.FA
Retrocopy DLGKNLPFPIYFPDGDEEELPEDLYDENVCQPSVPSIMFA

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	3.40 RPM	22.87 RPM
SRP007412_cerebellum	2.60 RPM	17.61 RPM
SRP007412_heart	0.69 RPM	6.32 RPM
SRP007412_kidney	7.44 RPM	29.40 RPM
SRP007412_liver	4.06 RPM	18.94 RPM
SRP007412_testis	5.80 RPM	31.81 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_969 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_969 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1236
Pan troglodytes	retro_ptro_850

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000021216	1 retrocopy	retro_cpor_324,
Dasypus novemcinctus	ENSDNOG00000014498	1 retrocopy	retro_dnov_178,
Homo sapiens	ENSG00000114686	1 retrocopy	retro_hsap_1236,
Gorilla gorilla	ENSGGOG00000011128	1 retrocopy	retro_ggor_969 ,
Microcebus murinus	ENSMICG00000009524	1 retrocopy	retro_mmur_1106,
Ochotona princeps	ENSOPRG00000000501	1 retrocopy	retro_opri_589,
Pan troglodytes	ENSPTRG00000015396	1 retrocopy	retro_ptro_850,
Sus scrofa	ENSSSCG00000011179	1 retrocopy	retro_sscr_126,