RetrogeneDB ID: retro_etel_1413

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_262161:8113..8503(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GSTO1
• Ensembl ID: ENSETEG00000017967
• Aliases: None
• Description: glutathione S-transferase omega 1 [Source:HGNC Symbol;Acc:13312]

Sequence

>retro_etel_1413
CATGAAGTCATCAATATCAACCTGAAAAACAAACCGGAGTGGTCCTTCTCGGAGAATCCCTCTGGCCTGGTGCCAGTTCT
GGAAAAGAGTCAGGGCCACCTCATCTATGAATCTACCATCACCTGTGAGTACCTGGATGAAGCCTACCCAGGGAAGAAGC
TGTTGCCAGATGGCCCCTATGAGAACGCTGGCCAAAAGATGGTCTTTGAGTTCATTGCTAAGATACCACCTTTGTTAGGA
AGCCTTGTTAGAAGGCGAGATAAGGAAGAATGTTTGGGCCTAAAAGAAACACTGTGTGAAGAATTCCACAAGCTAGAGGA
GGTTTGGGTGAATAAGAAGACAACATTATTTGGTGGCAACTCTCCTTCTATGATTGATGACCTCACGTGG

Alignment

ORF - retro_etel_1413 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.92 %
• Parental protein coverage: 57.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HEVINITLEKNPEWFFSKNPSGLVPVLENSQGQLIYESAITCECLDEAYPGKKLLPDDPYEKARQKMVFE
          HEVINI.L...PEW.FS.NPSGLVPVLE.SQG.LIYES.ITCE.LDEAYPGKKLLPD.PYE.A.QKMVFE
Retrocopy HEVININLKNKPEWSFSENPSGLVPVLEKSQGHLIYESTITCEYLDEAYPGKKLLPDGPYENAGQKMVFE

Parental  LFAKIPFLIGSFVRRQDKGDCPGLKEELCEEFSKLEEVLVNKKTTFFGGDSLSMIDYLIW
          ..AKIP.L.GS.VRR.DK..C.GLKE.LCEEF.KLEEV.VNKKTT.FGG.S.SMID.L.W
Retrocopy FIAKIPPLLGSLVRRRDKEECLGLKETLCEEFHKLEEVWVNKKTTLFGGNSPSMIDDLTW

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Echinops telfairi was not studied using RNA-Seq expression data.

ChIP-Seq

Echinops telfairi was not studied using ChIP-Seq data.

EST

Echinops telfairi was not studied using EST data.

TSS

Echinops telfairi was not studied using FANTOM5 data.

Lab

retro_etel_1413 was not experimentally validated.

Homology

Retrocopy orthology:

Echinops telfairi does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

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

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018474	1 retrocopy	retro_cjac_295,
Echinops telfairi	ENSETEG00000017967	1 retrocopy	retro_etel_1413 ,
Homo sapiens	ENSG00000148834	1 retrocopy	retro_hsap_2704,
Gorilla gorilla	ENSGGOG00000005064	1 retrocopy	retro_ggor_24,
Macaca mulatta	ENSMMUG00000015334	1 retrocopy	retro_mmul_142,
Nomascus leucogenys	ENSNLEG00000015358	1 retrocopy	retro_nleu_1577,
Pongo abelii	ENSPPYG00000002633	1 retrocopy	retro_pabe_2256,
Pan troglodytes	ENSPTRG00000002925	1 retrocopy	retro_ptro_1825,