RetrogeneDB ID: retro_etel_2063

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_45172:535..1060(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: IMMP2L
• Ensembl ID: ENSETEG00000001410
• Aliases: None
• Description: IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae) [Source:HGNC Symbol;Acc:14598]

Sequence

>retro_etel_2063
ATGGCACAGCCCTGGGGCTGGGTGAGAAGACACTTCAGGGGGTTTTGCAAAGGCTTCTTCGTGGCCGTGCCCATGGCAGT
GACCTTCCTGGACAGCGTCGCCTGCGTGGCACGAGTGGAAGGGGCATCCATGCAGCCCTCGCTGAATCCCGGCGGGAGCC
AGTCGTCCGACGTGGTGCTGCTGAACCACTGGAAAGTGAGGAACCTGCAAGTGCAGCGTGGTGACGTGGTGTCACTGGTG
TCCCCAAGAAACCCAGGACAGAAGATCATCAAGCGAGTGATTGCCCTTGAAGGGGACGTCGTCAGAACCATGGGTCACAG
ACGCCGCTACGTCCAGATCCCCCCGGGTCACATGTGGGTCGAAGGCGATCACCACGGGCACAGTTTTGACAGTAACTCTT
TCGGGCCAGTCTCCCTGGGGCTCCTCCATGCCCACGCCACCCACATCCTGTGGCCCCCACAACGCTGGCAGAGACTGGAG
TCGGTCCTACCACCAGAGCGCCTACCGGTCCAGAGCGCAGAGGAG

Alignment

ORF - retro_etel_2063 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.0 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAQSQSWVKRYFKAFFKGFFVAVPVAVTFLDRVACVARVEGMSMQPSLNPGGSQSSDVVLLNHWKVRNFE
          MAQ...WV.R.F..F.KGFFVAVP.AVTFLD.VACVARVEG.SMQPSLNPGGSQSSDVVLLNHWKVRN..
Retrocopy MAQPWGWVRRHFRGFCKGFFVAVPMAVTFLDSVACVARVEGASMQPSLNPGGSQSSDVVLLNHWKVRNLQ

Parental  VQRGDIVSLVSPKNPEQKIIKRVIALEGDIVKTMGHKTRYVKVPPGHIWVEGDHHGHSFDSNSFGPVSLG
          VQRGD.VSLVSP.NP.QKIIKRVIALEGD.V.TMGH..RYV..PPGH.WVEGDHHGHSFDSNSFGPVSLG
Retrocopy VQRGDVVSLVSPRNPGQKIIKRVIALEGDVVRTMGHRRRYVQIPPGHMWVEGDHHGHSFDSNSFGPVSLG

Parental  LLHAHATHILWPPERWQKLESFLPPERLPVQSTED
          LLHAHATHILWPP.RWQ.LES.LPPERLPVQS.E.
Retrocopy LLHAHATHILWPPQRWQRLESVLPPERLPVQSAEE

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_2063 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000001410	2 retrocopies	retro_etel_1369, retro_etel_2063 ,
Tupaia belangeri	ENSTBEG00000000103	2 retrocopies	retro_tbel_2112, retro_tbel_2872,