RetrogeneDB ID: retro_etel_1744

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_291573:45447..45676(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NCMAP
• Ensembl ID: ENSETEG00000006813
• Aliases: None
• Description: noncompact myelin associated protein [Source:HGNC Symbol;Acc:29332]

Sequence

>retro_etel_1744
ATGACCACTGTCACCCCTTTGGGGGTTACCACCTTTTCTCATTGAACATGACCACGAGGGGAGAAGACTTCCTGTATGAG
AGTTTGGGCACCATTGTCACTGCCATTGTGGTGGTTGTCATCGTCATCTTCACCGTGGTTCTGATCCTTCTGAAGATGTA
CAACAGGAAAATGGGGACCAGGGAGAACTGGAGCCCAAGGGCCTCAAGCCAGCCTCTCCTTCTGCCCTG

Alignment

ORF - retro_etel_1744 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.08 %
• Parental protein coverage: 75.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MTTVTPLGATTF-FSLNMTTRGEDFLYKSSGAIVAAIVVVVIVIFTVVLILLKMYNRKMRTRR-ELEPKG
          MTTVTPLG.TTF.FSLNMTTRGEDFLY.S.G.IV.AIVVVVIVIFTVVLILLKMYNRKM.TR..ELEPKG
Retrocopy MTTVTPLGVTTF<FSLNMTTRGEDFLYESLGTIVTAIVVVVIVIFTVVLILLKMYNRKMGTRE<ELEPKG

Parental  PKPASSSAL
          .KPAS.SAL
Retrocopy LKPASPSAL

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_1744 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	ENSBTAG00000012604	1 retrocopy	retro_btau_1472,
Echinops telfairi	ENSETEG00000006813	1 retrocopy	retro_etel_1744 ,