RetrogeneDB ID: retro_etel_322

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_5335:81836..82019(+)
• Located in intron of: ENSETEG00000014334

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL33
• Ensembl ID: ENSETEG00000003239
• Aliases: None
• Description: mitochondrial ribosomal protein L33 [Source:HGNC Symbol;Acc:14487]

Sequence

>retro_etel_322
ATGTTCCTAACTGCGGTCTCTTCTGCCAAGGGCATCTCAAAACCATTCTGGTGAAAATGTTGAGCCAAGCTGGTACAGGG
TACGTCTTCAACACCGAGAGAAGCCGGCTTCGGGAGAAACTGACCCTCTTGCGTTATGATCCTATTGGGCACAAAAAAAG
TCCTCTTTGTGGAACAGAAAGAA

Alignment

ORF - retro_etel_322 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.37 %
• Parental protein coverage: 93.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MFLTAVSFARSKSK-NILVKMLSQAGTGYTFNTKRSRLREKLTLLRYDPVVQ-KKVLFVEQKK
          MFLTAVS.A...SK..ILVKMLSQAGTGY.FNT.RSRLREKLTLLRYDP....KKVLFVEQK.
Retrocopy MFLTAVSSAKGISK<TILVKMLSQAGTGYVFNTERSRLREKLTLLRYDPIGH>KKVLFVEQKE

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_322 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 3 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000015881	1 retrocopy	retro_dnov_190,
Echinops telfairi	ENSETEG00000003239	2 retrocopies	retro_etel_2106, retro_etel_322 ,
Mus musculus	ENSMUSG00000029142	2 retrocopies	retro_mmus_1869, retro_mmus_1870,