RetrogeneDB ID: retro_etel_353

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_586:105366..105681(-)
• Located in intron of: ENSETEG00000000739

Retrocopy information

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

Parental gene information

• Parental gene symbol: RND3
• Ensembl ID: ENSETEG00000004538
• Aliases: None
• Description: Rho family GTPase 3 [Source:HGNC Symbol;Acc:671]

Sequence

>retro_etel_353
CAGGACGCCTCTCACAGGAGTTGGGTCCCCACTGTGCGAGAACTAACTACACAGCCACCTTTGAGATGGACAGGCGCCAC
ATTGAGCTCGACGTGGGACACTTCAGGTTCTTCTTGCTAAGATCATGTCTGACTCTGGCTTATCCACATTCTGATGCTGT
GCTTGTCTGCTCTGACATCAGGCACCAGAAACACTGGACACTCTCCTAAAGAGGTGGCAGGGGAGACTCAAGAGTTTTGC
CCCAGCACTAAGGTTGTGTGGGTTGGCTGTAAGCTGGACCTGTGGACTGAGCTGGCCACACTGAGGGAGCTGGCC

Alignment

ORF - retro_etel_353 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.35 %
• Parental protein coverage: 66.26 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYYDNV-RPLSYPDSDAVLICFDISR-PETLDS
          .D......VPTV.E..T......T.....S.WDTSGS...D.V...L.YP.SDAVL.C.DI...PETLD.
Retrocopy QDASHRSWVPTVRELTTQPPLRWTGATLSSTWDTSGSSC*DHV<LTLAYPHSDAVLVCSDIRH<PETLDT

Parental  VLKKARWKG-EIQEFCPNTKMLLVGCKSDLRTDVSTLVELS
          .LK..RW.G.E.QEFCP.TK...VGCK.DL.T...TL.EL.
Retrocopy LLK--RWQG<ETQEFCPSTKVVWVGCKLDLWTELATLRELA

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_353 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000004736	1 retrocopy	retro_dnov_2308,
Echinops telfairi	ENSETEG00000004538	1 retrocopy	retro_etel_353 ,