RetrogeneDB ID: retro_ggor_793

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 12:43301509..43302075(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSGGOG00000027501
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: MESDC2
• Ensembl ID: ENSGGOG00000027583
• Aliases: None
• Description: None

Sequence

>retro_ggor_793
ATAGTCCTAATTCATGCCTCTGGCCTGCTGCTGCAGCAGCAGCTACCTGGGGCTTGTGCAGCCAAGGGCCCAGCCAGAAC
ACCCAGTAAGGCTCTCTCACTTCCTCAGAAGAAGGAAGATATTCATGATTACAATGATATAGACATGGCATGTCTTCTGG
TAGAGTGGGAGAAGGATGATGACATAAAAAAAGATCTTCCAGAGCACAAGAGACCCTCAATACCTGTCAACTTCTTATAT
ATCAACCTGGGCAAGCCTGAAAGCACGTTGAAAATGATGAAAAAAGGGAAGATTCTTATATGTTTGTCACTGTATCAGGA
AGCCCCACTGAGAAAGAGAGAGGAAATCATGAGCCTCTGTCAGGGCAGTCTTTTCAATGCTAATGAAATGTCCAGAGGTT
CATTGTGGGATCAGACCATACTATCTTCATGCTTCATGATGGAAAATATGCCTGGGAGATCAAGAACTCTTTTGTCAGTG
AAGACAAGTGTGCTGACGCACCTCTGGAGGGACAGGTGTTCCCTGGCAAAGGAGAAGGAAGGAAGCAAAGAGAAAAATAA
AGACAA

Alignment

ORF - retro_ggor_793 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.94 %
• Parental protein coverage: 83.26 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VVLLCASDLLLLLLLPPPGSCAAEGSPGTPDESTPPPRKKKKDIRDYNDADMARLLEQWEKDDDIEEGDL
          .VL..AS.LLL...LP..G.CAA.G...TP......P.KK..DI.DYND.DMA.LL..WEKDDDI...DL
Retrocopy IVLIHASGLLLQQQLP--GACAAKGPARTPSKALSLPQKKE-DIHDYNDIDMACLLVEWEKDDDIKK-DL

Parental  PEHKRPSAPVDFSKIDPSKPESILKMTKKGKTLM-MFVTVSGS-PTEKETEEITSLWQGSLFNANY-DVQ
          PEHKRPS.PV.F..I...KPES.LKM.KKGK.L..MFVTVSGS.P..K..EEI.SL.QGSLFNAN...VQ
Retrocopy PEHKRPSIPVNFLYINLGKPESTLKMMKKGKILI<MFVTVSGS>PLRKR-EEIMSLCQGSLFNANE<NVQ

Parental  RFIVGSDRAIFMLRDGSYAWEIKDFLVGQDRCADVTLEGQVYPGKGGGSKEKNKTKQ
          RFIVGSD..IFML.DG.YAWEIK...V..D.CAD..LEGQV.PGKG.G.K...K..Q
Retrocopy RFIVGSDHTIFMLHDGKYAWEIKNSFVSEDKCADAPLEGQVFPGKGEGRKQREK*RQ

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	13.48 RPM
SRP007412_cerebellum	0.00 RPM	11.11 RPM
SRP007412_heart	0.00 RPM	4.19 RPM
SRP007412_kidney	0.00 RPM	11.04 RPM
SRP007412_liver	0.00 RPM	8.05 RPM
SRP007412_testis	0.00 RPM	16.16 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_793 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_793 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_990
Pan troglodytes	retro_ptro_759
Callithrix jacchus	retro_cjac_3285

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000007811	1 retrocopy	retro_cjac_3285,
Homo sapiens	ENSG00000117899	1 retrocopy	retro_hsap_990,
Gorilla gorilla	ENSGGOG00000027583	1 retrocopy	retro_ggor_793 ,
Loxodonta africana	ENSLAFG00000014513	1 retrocopy	retro_lafr_505,
Monodelphis domestica	ENSMODG00000019402	2 retrocopies	retro_mdom_30, retro_mdom_344,
Oryctolagus cuniculus	ENSOCUG00000016290	1 retrocopy	retro_ocun_1947,
Pan troglodytes	ENSPTRG00000007366	1 retrocopy	retro_ptro_759,