RetrogeneDB ID: retro_etel_255

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4333:117388..117784(+)
• Located in intron of: ENSETEG00000018968

Retrocopy information

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

Parental gene information

• Parental gene symbol: CHCHD4
• Ensembl ID: ENSETEG00000000065
• Aliases: None
• Description: coiled-coil-helix-coiled-coil-helix domain containing 4 [Source:HGNC Symbol;Acc:26467]

Sequence

>retro_etel_255
CAGGACCGAATCATATTTGTGACCAAAGAAGACCACAAAACCCCAAGCAGGGCAGAGCTGGTGGGTGATGGCCCCACGCT
CCTGCCGAGGAGCACGGATTGATTCTGCCCAATGGAGGCATGGACTGGAACTGCCCGGGTCTTGGAGGGCCGGCCAGTGG
CCCTGTGGGCAGCGGTTCAATGTCGGCCTTTCCCTGCTTCCTCTACAGCACAGAGGATGTCAAAGGGTCAGACCGTGTAG
ACCAGTTCCGGGCCATGCAGGTGTGCAGGTGGAAAGACCCAGTCTTCGGTCCCAAGATGCTACTGCCCCCGCCGAGGAAG
AAAAAGAGAAGCCAGAAGGCTCAGAGAAGTAGTTGCCACGGTGGTTACTGCAACCCAAAAGGAGGGGAGCTCGAGC

Alignment

ORF - retro_etel_255 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.71 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KDRIIFVTKEDHETPSSAELVADDP-NDPYEEHGLILPNGDINWNCPCLGGMASGPCGEQFKSAFSCFHY
          .DRIIFVTKEDH.TPS.AELV.D.P...P.EEHGLILPNG...WNCP.LGG.ASGP.G....SAF.CF.Y
Retrocopy QDRIIFVTKEDHKTPSRAELVGDGP<HAPAEEHGLILPNGGMDWNCPGLGGPASGPVGSGSMSAFPCFLY

Parental  STEDVKGSDCIDQFRAMQECMQK-YPDLYPQDDDDAEE-EKEKPE-VLEEVAPTEAAAAQKEEGSS
          STEDVKGSD..DQFRAMQ.C..K..P.L..QD.....E.EKEKPE..L.EV..T...A.QKE..SS
Retrocopy STEDVKGSDRVDQFRAMQVCRWK<RPSLRSQDATAPAEEEKEKPE<RLREVVATVVTATQKEGSSS

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_255 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000000065	2 retrocopies	retro_etel_2005, retro_etel_255 ,