RetrogeneDB ID: retro_etel_197

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_3400:126594..126922(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000001329
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: HBA
• Ensembl ID: ENSETEG00000020148
• Aliases: None
• Description: Hemoglobin subunit alpha [Source:UniProtKB/Swiss-Prot;Acc:P24291]

Sequence

>retro_etel_197
CTGACCAAGACCGAGAGGACCATGGTCTTGTCTATGTGGAGCAAGTTCTCCCTGCAGGTCGACAGCATGGGCACCAAGAC
CCCGGAGAGGCTCTTCACCAGCTACCCCCCAAACCAAGACCTACTTCCCACACTTCGACCTGCACCCGGGCTCGGCCCAG
CTGCGCGCGCACGGCTCCAAGGTGGTGGCTGCAGTGGGCGACGCGGTCAAGCACATAGACAACATCTCTGGGGCGCTGGC
CAAGCTGAGCGAGCTGCACACCTACATCCTGCGCGTGGACCCTGTCAACTTCAAGCTTCTGTCTCACTGCCTGCTGGTGA
CCCTGGCC

Alignment

ORF - retro_etel_197 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.36 %
• Parental protein coverage: 76.76 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LSAADKANVKAVWEKAGGNVGKYGGEALDRTFLSFPT-TKTYFPHMDLTPGSADIMAHGKKVADALTLAV
          L.......V...W.K....V...G.....R.F.S.P..TKTYFPH.DL.PGSA...AHG.KV..A...AV
Retrocopy LTKTERTMVLSMWSKFSLQVDSMGTKTPERLFTSYPP>TKTYFPHFDLHPGSAQLRAHGSKVVAAVGDAV

Parental  GHMDDLPGALSKLSDLHAYKLRVDPVNFKLLSHCLLVTLA
          .H.D...GAL.KLS.LH.Y.LRVDPVNFKLLSHCLLVTLA
Retrocopy KHIDNISGALAKLSELHTYILRVDPVNFKLLSHCLLVTLA

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_197 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	ENSETEG00000020148	1 retrocopy	retro_etel_197 ,