RetrogeneDB ID: retro_etel_2078

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_49489:817..1057(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000015698
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: COX7A1
• Ensembl ID: ENSETEG00000007654
• Aliases: None
• Description: cytochrome c oxidase subunit VIIa polypeptide 1 (muscle) [Source:HGNC Symbol;Acc:2287]

Sequence

>retro_etel_2078
AGGGTCCTGCGGGTCTCCCAGACGCTGGTTCGCTCCCTTCAGCTCCACAGCCCCGGAACCGCTTAGAGACCCGAGTGGCC
GAGAAGCAGAAACTTTTCCCAGGCAGACAATGACCTCCCAGTGCATTTGAAAGGAGAGGGAACTGACCAAATCCTGTACC
GACTGACAATGGCACTGTGTCTGGGCGGCACCTGCTACTCCCTGTACTACCTCGCCTGGGCTGCCTTCCCCCACAAGAAG

Alignment

ORF - retro_etel_2078 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.46 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  RVLRVSQALVRS-FSSTA-RNRLENRVAEKQKLF-QADNDLPVHLKGEGTDQILYRLTMALCLGGTVHSL
          RVLRVSQ.LVRS.FSSTA.RNRLE.RVAEKQKLF.QADNDLPVHLKGEGTDQILYRLTMALCLGGT..SL
Retrocopy RVLRVSQTLVRS>FSSTA>RNRLETRVAEKQKLF>QADNDLPVHLKGEGTDQILYRLTMALCLGGTCYSL

Parental  YYLAWAAFPHKK
          YYLAWAAFPHKK
Retrocopy YYLAWAAFPHKK

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_2078 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 7 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012840	1 retrocopy	retro_chof_305,
Echinops telfairi	ENSETEG00000007654	1 retrocopy	retro_etel_2078 ,
Echinops telfairi	ENSETEG00000011940	1 retrocopy	retro_etel_650,
Myotis lucifugus	ENSMLUG00000012331	1 retrocopy	retro_mluc_187,
Macaca mulatta	ENSMMUG00000000250	3 retrocopies	retro_mmul_1665, retro_mmul_1968, retro_mmul_2489,
Monodelphis domestica	ENSMODG00000025577	1 retrocopy	retro_mdom_1288,
Pan troglodytes	ENSPTRG00000010888	1 retrocopy	retro_ptro_125,