RetrogeneDB ID: retro_etel_2114

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_64775:3155..3383(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000008917
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PLEKHJ1
• Ensembl ID: ENSETEG00000017943
• Aliases: None
• Description: pleckstrin homology domain containing, family J member 1 [Source:HGNC Symbol;Acc:18211]

Sequence

>retro_etel_2114
TTGCACTACAAGGAGAAGGAGCTGCAGGCGCTCTCCCGGCAGCCGGCTGATATGGCAGCCGAGCTGGGCCTGCGGGTCCC
CAAGGAGGGCAGCGTGGTGAAGCGGTGGCTGATAAAGCTGGTGGCCAATTTCCTCTTCTACTTCCGGACGCACGAGGCCG
AGCCCATCGGAGCCTTGTTACTGGAGCACTGCCGAGTCACCCGGGAAGAACCCAGTGCCTTCTCCATC

Alignment

ORF - retro_etel_2114 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.16 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRYNEKELQALSRQPADMAAELGMRVPKKGSVVKRRLIKLVANFLFYFRTHEAEPIGAWLLEHCRVTRED
          ..Y.EKELQALSRQPADMAAELG.RVPK.GSVVKR.LIKLVANFLFYFRTHEAEPIGA.LLEHCRVTRE.
Retrocopy LHYKEKELQALSRQPADMAAELGLRVPKEGSVVKRWLIKLVANFLFYFRTHEAEPIGALLLEHCRVTREE

Parental  PS-FSI
          PS.FSI
Retrocopy PSAFSI

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_2114 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	ENSETEG00000017943	1 retrocopy	retro_etel_2114 ,