RetrogeneDB ID: retro_etel_954

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_190600:3379..3896(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CLYBL
• Ensembl ID: ENSETEG00000007523
• Aliases: None
• Description: citrate lyase beta like [Source:HGNC Symbol;Acc:18355]

Sequence

>retro_etel_954
GCAGCTGATGTTTCTAGACATGGATATAGTTCCATATCAAGTTATAAGTGTACTCTCTAAAAGGGAAGTGCACTATGTTC
CTGGAAATGATGAGAAGAAAATAAAGACATTTCCATCTCTGAATTTAGCGCTCGATTGTGAGGATCACGTAACGAATGGC
TGTGAACAAAAGAGTGAAGTTTGAATGAGAATAGTTAAAGCTCTTAAAGACCTTGATCTTGGCCCAACAGAAAAGTGTGT
GAGAATTGACTCAGAGTCCAGTGCTCTTGCTGAAGAAGACCTGGAGGCTCATTTGCAATTCCAGGTTCTTCCTTCCAGCT
TGATGAGACCCAAGGTGGAAAATCCTGAGGAAATCCAATGGTTTTCAGACAAATTTTCATTTAATTTAAAGGGCCCAAAC
TTGAACAACCTAGGAATGTAATCCTCTTTTGTGGAAACTGCAGTGGGTTTTCTCAATTTTATAGACATGTGGAAAGAAGC
ACTGCAGACAGGTCAGCAAGTGGGTTTTTTTCTAGAC

Alignment

ORF - retro_etel_954 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.92 %
• Parental protein coverage: 54.4 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  AAAGCRRGRGSSSSHKYT-PRRAVLYVPGNDEKKIRKIPTLSVDCAVLDCEDGVA--ASKKSEARMRIVK
          AA...R.G..S.SS.K.T...R.V.YVPGNDEKKI...P.L......LDCED.V......KSE..MRIVK
Retrocopy AADVSRHGYSSISSYKCT>SKREVHYVPGNDEKKIKTFPSLNL---ALDCEDHVTNGCEQKSEV*MRIVK

Parental  TLEDFDLGPTEKCVRINAVSSGLAEEDLEALLQSRILPSSLMLPKVEHPEDIQWFSDKFSFHL-KGRKLE
          .L.D.DLGPTEKCVRI...SS.LAEEDLEA.LQ...LPSSLM.PKVE.PE.IQWFSDKFSF.L.KG.KLE
Retrocopy ALKDLDLGPTEKCVRIDSESSALAEEDLEAHLQFQVLPSSLMRPKVENPEEIQWFSDKFSFNL<KGPKLE

Parental  QPMNLI-PFVETAMGLLNFKAVCEEALRTGPHVGLTLD
          QP.N.I..FVETA.G.LNF.....EAL.TG..VG..LD
Retrocopy QPRNVI>SFVETAVGFLNFIDMWKEALQTGQQVGFFLD

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_954 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000007523	1 retrocopy	retro_etel_954 ,