RetrogeneDB ID: retro_etel_1029

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_201859:1994..2501(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SUPT3H
• Ensembl ID: ENSETEG00000004704
• Aliases: None
• Description: suppressor of Ty 3 homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:11466]

Sequence

>retro_etel_1029
TTACAGCAAGCTGCAGACATTTCTCAGCTGAGAGGAGCAAAGGTGATCTCTGCTGAAGATCTTTTGTTTTTGGTGCGCAA
GGATAAGAAAAAACTTAGAAGACTGCTAAGAGACATGTTCTTCCGAGACTACAAATCAAAACTTGTTAAAGGCACAGATG
AGGATGAACTTCTGGAAGACAAACTGTGTGGCAGCAGGAATTCCAACAAAAGGCAAAAAATTGCTCAGGAGTTTCTCAGC
TCTATTGACCAGACAGGAGAACTGTTAGCAATGCTTGAAGATGATGAGCTCGATGAAGTTAAACAAGAGAGAATGGAGAG
AGCAGAAAGACAAACCAGAATGATGGATTCGGCGCAGTATGCAGAATTTTGTGAAAGTCGGCAATTAAGTTTCTCTAAAA
AGGCCTCCAAATTCCGAGACTGGTTGGACTGCCGCAGTCTGGAGATAAAACCCAATGCTGTGGCGATGGAAATTTTAGCG
TACTTGGCATATGAAACCGTGGCACAG

Alignment

ORF - retro_etel_1029 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.31 %
• Parental protein coverage: 51.52 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LQQAAEISQLRGAKVISAEDLLFLMRKDKKKLRRLLKYMFFRDYKSKIVKGIDEDELLEDKLTGSSNTNK
          LQQAA.ISQLRGAKVISAEDLLFL.RKDKKKLRRLL..MFFRDYKSK.VKG.DEDELLEDKL.GS.N.NK
Retrocopy LQQAADISQLRGAKVISAEDLLFLVRKDKKKLRRLLRDMFFRDYKSKLVKGTDEDELLEDKLCGSRNSNK

Parental  RQKLAQEFLSSIDQTGELLAMLEDDDVDEVKQERMERAERQTRMMDSAQYAEFCESRQLSFSKKASKFRD
          RQK.AQEFLSSIDQTGELLAMLEDD..DEVKQERMERAERQTRMMDSAQYAEFCESRQLSFSKKASKFRD
Retrocopy RQKIAQEFLSSIDQTGELLAMLEDDELDEVKQERMERAERQTRMMDSAQYAEFCESRQLSFSKKASKFRD

Parental  WLDCSSLEIKPNAVAMEILAYLAYETVAQ
          WLDC.SLEIKPNAVAMEILAYLAYETVAQ
Retrocopy WLDCRSLEIKPNAVAMEILAYLAYETVAQ

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_1029 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000024037	1 retrocopy	retro_cpor_1320,
Dasypus novemcinctus	ENSDNOG00000011043	1 retrocopy	retro_dnov_150,
Echinops telfairi	ENSETEG00000004704	1 retrocopy	retro_etel_1029 ,
Myotis lucifugus	ENSMLUG00000016339	1 retrocopy	retro_mluc_2262,
Oryctolagus cuniculus	ENSOCUG00000014574	1 retrocopy	retro_ocun_1724,