RetrogeneDB ID: retro_etel_956

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_190627:3111..3417(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TMEM220
• Ensembl ID: ENSETEG00000015072
• Aliases: None
• Description: transmembrane protein 220 [Source:HGNC Symbol;Acc:33757]

Sequence

>retro_etel_956
AAGAGCATTTCTGCAGAACACTTATTAGTTTGTGTTGTGGGGGCTCTTGACTTATGACACTACATCTTACTTCATAGCCA
ACAGGACTTCTTACATGAGGAAGATGGCAGAGAGCTGTCTGTTCTGGTGATTATAGCAGTCTGGATGAGTCTATGCCACA
GTTCATCAAAGAATACAGTTGGTGAAATAATTCAATTGGTTATTGCTATTATAATCTCTCTTATTCCAATACTCATCTCA
AGGGGCCGCATATATATTAATGAAGAGATGCGGTCCTCCTGGCCAACTCACTGCAAGACAGTAATT

Alignment

ORF - retro_etel_956 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.59 %
• Parental protein coverage: 74.26 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KSVSAVHLSVCVVWALGLGYYLSLHSQQSILHEEEGRELSGLAIIAAWIILCHGSSKNPVGGRIQLTIAI
          KS.SA.HL.VCVV.AL.L..Y..LHSQQ..LHEE.GRELS.L.IIA.W..LCH.SSKN.VG..IQL.IAI
Retrocopy KSISAEHLLVCVVGALDL*HYILLHSQQDFLHEEDGRELSVLVIIAVWMSLCHSSSKNTVGEIIQLVIAI

Parental  IISLFPLII-WGYIYIHEDMRSSWPTHCKTVI
          IISL.P..I..G.IYI.E.MRSSWPTHCKTVI
Retrocopy IISLIPILISRGRIYINEEMRSSWPTHCKTVI

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_956 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
Bos taurus	ENSBTAG00000003958	1 retrocopy	retro_btau_1404,
Echinops telfairi	ENSETEG00000015072	1 retrocopy	retro_etel_956 ,