RetrogeneDB ID: retro_ggor_2389

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 6:155615769..155616491(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C6ORF203
• Ensembl ID: ENSGGOG00000006113
• Aliases: None
• Description: None

Sequence

>retro_ggor_2389
ATGGCTATGACTAGTGTCAAACTGCATGCTGGTGTTTTAAGAAAGCCAGATACCTGGATTGGACTCTGGGGTGTTCTCTG
AGGAACACCTTCATCACACAAACTCTGTACTTCCTGGAATCAGTACTTGTATTTTTCTAGTACCAAGTTACATGTACCAA
ATTATAAAACACTTTTCCATAACATTTTCTCACTGAGACTCCCGGGGCTTTTAATATCTCTGGAATATTTTTTTCCATTT
TCCATAAGACTCAAAAGTAATATAAGCTCTACAAAATCTACTAAAAAGTATCTGCAAAAAATAGGAGATGAGGAGGACTC
TGATGCAGAAAGTGATCAGAACGAGATGAGTGAGCAGGAAGAGGAGCTTGAGGATGGCCTTACTATAGCAAAGACTATCA
AGACCTGGAAACAGTAGTGCGGTCTTTTCAGGATGATGTTGTCCTGAAGACAAACCTGGATATTGGAAGAAACAAAGTGG
AAGATGCATTCTGCAAAGGTGAATTCAGGCTGAATGGGGAAAAATTATGGAAGAAAAGCAGAATGGTCAAAGCGGGAGAT
ACATCGGATCTTCTCATTGGAGGAATAAGGAAGCAGGAACAGAAACAGTGATGCAGATTCTCCCAAAAAAAAGTGTTTGA
AGAGAAGACTGAAAGTGAAAAATACACGGTGGTATCACAGCGGTGGAAAAACTTAAAAATGCCTAAGAAGAGAATGTCTA
AA

Alignment

ORF - retro_ggor_2389 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.69 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MAMASVKLLAGVLRKPDAWIGLWGVLRGTPSSYKLCTSWNRYLYFSSTKLRAPNYKTLFYNIFSLRLPGL
          MAM.SVKL.AGVLRKPD.WIGLWGVL.GTPSS.KLCTSWN.YLYFSSTKL..PNYKTLF.NIFSLRLPGL
Retrocopy MAMTSVKLHAGVLRKPDTWIGLWGVL*GTPSSHKLCTSWNQYLYFSSTKLHVPNYKTLFHNIFSLRLPGL

Parental  LLSPECIFPFSIRLKSNIRSTKSTKKSLQKV-DEEDSDEESDHDEMSEQEEELEDDPTVV-KNYKDLEKA
          L.S.E..FPFSIRLKSNI.STKSTKK.LQK..DEEDSD.ESD..EMSEQEEELED..T...K.Y.DLE..
Retrocopy LISLEYFFPFSIRLKSNISSTKSTKKYLQKIGDEEDSDAESDQNEMSEQEEELEDGLTIA<KDYQDLETV

Parental  VQSFRYDVVLKTGLDIGRNKVEDAFYKGELRLNEEKLWKKSRTVKVGDTLDLLIG-EDKEAGTETVMRIL
          V.SF..DVVLKT.LDIGRNKVEDAF.KGE.RLN.EKLWKKSR.VK.GDT.DLLIG...KEAGTETVM.IL
Retrocopy VRSFQDDVVLKTNLDIGRNKVEDAFCKGEFRLNGEKLWKKSRMVKAGDTSDLLIG<RNKEAGTETVMQIL

Parental  -LKKVFEEKTESEKYRVVLRRWKSLKLPKKRMSK
          ....VFEEKTESEKY.VV..RWK.LK.PKKRMSK
Retrocopy >XXXVFEEKTESEKYTVVSQRWKNLKMPKKRMSK

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	10.36 RPM
SRP007412_cerebellum	0.00 RPM	8.67 RPM
SRP007412_heart	0.00 RPM	5.82 RPM
SRP007412_kidney	0.00 RPM	18.32 RPM
SRP007412_liver	0.00 RPM	10.66 RPM
SRP007412_testis	0.00 RPM	10.36 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_2389 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_2389 has 2 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_3538
Pan troglodytes	retro_ptro_2405

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Parental genes homology:

Parental genes homology involve 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003732	1 retrocopy	retro_cfam_1818,
Homo sapiens	ENSG00000130349	1 retrocopy	retro_hsap_3538,
Gorilla gorilla	ENSGGOG00000006113	1 retrocopy	retro_ggor_2389 ,
Macropus eugenii	ENSMEUG00000013534	1 retrocopy	retro_meug_2181,
Microcebus murinus	ENSMICG00000004137	1 retrocopy	retro_mmur_1269,
Macaca mulatta	ENSMMUG00000007391	1 retrocopy	retro_mmul_115,
Nomascus leucogenys	ENSNLEG00000013450	2 retrocopies	retro_nleu_1433, retro_nleu_499,
Otolemur garnettii	ENSOGAG00000008839	2 retrocopies	retro_ogar_1396, retro_ogar_390,
Pongo abelii	ENSPPYG00000016885	1 retrocopy	retro_pabe_2922,
Pan troglodytes	ENSPTRG00000018464	2 retrocopies	retro_ptro_1453, retro_ptro_2405,
Tursiops truncatus	ENSTTRG00000008837	2 retrocopies	retro_ttru_324, retro_ttru_432,