RetrogeneDB ID: retro_ggor_2756

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 8:102822176..102822476(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MED21
• Ensembl ID: ENSGGOG00000016313
• Aliases: None
• Description: None

Sequence

>retro_ggor_2756
GATCAGCTCATGCAGCTGTAAGACACCATGAACTCGCTTTCAGATCAGTTTTGCAATGCCACTGATGTGTTACAGCAATG
TGGTCTTCCTGCCTCTTTTAATAATATTCAGACAGCAATTAACAAAGACCAGCCAGCTAACCCTACAGAAGAATATGCTC
AGCTTCTTATAGCACTGATTGCACAAACAGCAAAAGACATTCATGTTTTGATAGATTCCTTACCCAGTGAAGAATCTACA
GCTGCTTTATAGGCTACTCCCTTATGTAAGCTAGAAGAACAAAACCATGAAGCTGCTACA

Alignment

ORF - retro_ggor_2756 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82. %
• Parental protein coverage: 69.44 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DRLTQLQDAVNSLADQFCNAIGVLQQCGPPASFNNIQTAINKDQPANPTEEYAQLFAALIARTAKDIDVL
          D.L.QL.D..NSL.DQFCNA..VLQQCG.PASFNNIQTAINKDQPANPTEEYAQL..ALIA.TAKDI.VL
Retrocopy DQLMQL*DTMNSLSDQFCNATDVLQQCGLPASFNNIQTAINKDQPANPTEEYAQLLIALIAQTAKDIHVL

Parental  IDSLPSEESTAALQAASLYKLEEENHEAAT
          IDSLPSEESTAAL.A..L.KLEE.NHEAAT
Retrocopy IDSLPSEESTAAL*ATPLCKLEEQNHEAAT

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	0.05 RPM	10.84 RPM
SRP007412_cerebellum	0.04 RPM	10.40 RPM
SRP007412_heart	0.00 RPM	3.66 RPM
SRP007412_kidney	0.04 RPM	18.15 RPM
SRP007412_liver	0.00 RPM	7.89 RPM
SRP007412_testis	0.00 RPM	45.48 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_2756 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2756 has 4 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_4105
Pan troglodytes	retro_ptro_2786
Pongo abelii	retro_pabe_3361
Macaca mulatta	retro_mmul_2365

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Parental genes homology:

Parental genes homology involve 13 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011670	1 retrocopy	retro_amel_108,
Dasypus novemcinctus	ENSDNOG00000010041	1 retrocopy	retro_dnov_998,
Echinops telfairi	ENSETEG00000006223	1 retrocopy	retro_etel_1141,
Felis catus	ENSFCAG00000030691	1 retrocopy	retro_fcat_1101,
Homo sapiens	ENSG00000152944	1 retrocopy	retro_hsap_4105,
Gorilla gorilla	ENSGGOG00000016313	1 retrocopy	retro_ggor_2756 ,
Myotis lucifugus	ENSMLUG00000007678	1 retrocopy	retro_mluc_229,
Macaca mulatta	ENSMMUG00000003218	1 retrocopy	retro_mmul_2365,
Nomascus leucogenys	ENSNLEG00000005431	1 retrocopy	retro_nleu_573,
Pongo abelii	ENSPPYG00000004377	1 retrocopy	retro_pabe_3361,
Pan troglodytes	ENSPTRG00000004785	1 retrocopy	retro_ptro_2786,
Pteropus vampyrus	ENSPVAG00000013357	1 retrocopy	retro_pvam_449,
Ictidomys tridecemlineatus	ENSSTOG00000008391	2 retrocopies	retro_itri_1005, retro_itri_1057,