RetrogeneDB ID: retro_ggor_1126

Retrocopy location

• Organism: Gorilla (Gorilla gorilla)
• Coordinates: 14:87753117..87753871(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ELK1
• Ensembl ID: ENSGGOG00000008714
• Aliases: None
• Description: None

Sequence

>retro_ggor_1126
CATCCAGTCTCTGCAGCCGCAGCCACCCCCTCAGCCTCGGCTTGCTGCGGTGCTCCCCAACGCAGCTCCTGCAGTCCAAG
CCCCTGGGAGGCCTGCCCGGAGGCTGAGGAAGCCGGCTTCCCTCTGCAGGTCATCCTGACCCCGCCCGAGGCCCCAAACC
TGAAACTGGAAGAGCCGAATGTGGAGCCGGGCTTGCGCCGCCCTTTGCCCCCGGAAGTGGAAGTGGAAGGGCCCAAGGAA
GAGCTGGAATTCGCGGGGGAGAGGGTTCGTGCCAGAAACCGCCAAAGCCGAGCCTGAAGTCCCTCCACAGGAGGGCGTGC
CAGCCCCGCTGCCGAGGTCCTTACGGACACCGCAGGGCAGGCGGGCGGCCACGCGGCTTCCAGCCCTCAGATCTCCCAGC
CGCAGAAGGGCCGGAAGCCCCGGGACCTAGAGCTTCCACTCAGCCCGAGCCTGCTAGGTGCGCCGGGACCCGAACGGACC
CCAGGATCGGGAACTGGCTCCGGCCTCCAGGCGCCGAGGCCGGCGCTGACCCTGTCCCTGCTTCCTACGCATACGTTGAC
CCCGGCGCTGCTGACAGCCAGCTCGCTGCCTCCCAGCATTCACTTCCGGAGCACCGAGTCCCACTGCGCCCCGCAGCCCG
GCCAAGCTCTCCTGCCAGCTTCCGTCCAGTGGCGGCGCGCAGGTGCACATCCCTTCCATCGGCGTGGATGGCCTCTCGAC
CCCCGCGGTGCTCTCGCCAGGGCCCCAGAAGCCA

Alignment

ORF - retro_ggor_1126 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.22 %
• Parental protein coverage: 57.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  HPRPAVVLPNAAPAGAAAPPSGSRSTSPSPLEACLEAEEAGLPLQVILTPPEAPNLKSEELNVEPGLGRA
          HP..A......A.A...AP...S...SPSP.EAC.EAEEAG.PLQVILTPPEAPNLK.EE.NVEPGL.R.
Retrocopy HPVSAAAATPSASACCGAPQRSS--CSPSPWEACPEAEEAGFPLQVILTPPEAPNLKLEEPNVEPGLRRP

Parental  LPPEVKVEG-PKEELEVAGERGFVPETTKAEPEVPPQEGVPARLPA-VVMDTAGQAGGHAASSPEISQPQ
          LPPEV.VEG.P.......G.RGFVPET.KAEPEVPPQEGVPA.LP..V..DTAGQAGGHAASSP.ISQPQ
Retrocopy LPPEVEVEG>PRKSWNSRG-RGFVPETAKAEPEVPPQEGVPAPLPR<VLTDTAGQAGGHAASSPQISQPQ

Parental  KGRKPRDLELPLSPSLLGGPGPERTPGSGSGSGLQAPGPALTPSLLPTHTLTPVLLTPSSLPPSIHFWST
          KGRKPRDLELPLSPSLLG.PGPERTPGSG.GSGLQAP.PALT.SLLPTHTLTP.LLT.SSLPPSIHF.ST
Retrocopy KGRKPRDLELPLSPSLLGAPGPERTPGSGTGSGLQAPRPALTLSLLPTHTLTPALLTASSLPPSIHFRST

Parental  LS-PIAP-RSPAKLSFQFPSSGSAQVHIPSISVDGLSTPVVLSPGPQKP
          .S.P..P.RSPAKLS.Q.PSSG.AQVHIPSI.VDGLSTP.VLSPGPQKP
Retrocopy ES<PLRP<RSPAKLSCQLPSSGGAQVHIPSIGVDGLSTPAVLSPGPQKP

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	41.38 RPM
SRP007412_cerebellum	0.04 RPM	62.17 RPM
SRP007412_heart	0.00 RPM	10.32 RPM
SRP007412_kidney	0.00 RPM	9.32 RPM
SRP007412_liver	0.00 RPM	17.70 RPM
SRP007412_testis	0.21 RPM	35.43 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_1126 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ggor_1126 has 1 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1466

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Parental genes homology:

Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000126767	2 retrocopies	retro_hsap_1465, retro_hsap_1466,
Gorilla gorilla	ENSGGOG00000008714	1 retrocopy	retro_ggor_1126 ,
Gorilla gorilla	ENSGGOG00000015464	1 retrocopy	retro_ggor_3064,
Macaca mulatta	ENSMMUG00000019420	2 retrocopies	retro_mmul_1559, retro_mmul_2276,