RetrogeneDB ID: retro_etel_1084

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_208962:202..490(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000009721
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: SYS1-DBNDD2
• Ensembl ID: ENSETEG00000014613
• Aliases: None
• Description: SYS1-DBNDD2 readthrough (NMD candidate) [Source:HGNC Symbol;Acc:33535]

Sequence

>retro_etel_1084
ATGGCAGGGCAGTTCCGCTGTGACATGTGGGACCCGTTGCTGATCCTGTCGCAGATCGTTCTCATGCAGATCGTCTACTA
TGGCTCGCTGGGCCTGTGGCTGGTGCTGGTGGACGGGCTGGTGCGCAGCAGCCCCTCGCTGGACCGGATGTTCAACGGAG
AAATCCTCGGCTTCTCCACCCCTCCTGGCCGGCTCTCCATGATGTCCTTCATCCTCAGCGCCCTCACCTGTGCCCTGGGC
TTGCTGTACATCATTCGGCGAAGGACGCAGTGCCTGGACTTCACTGTC

Alignment

ORF - retro_etel_1084 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.71 %
• Parental protein coverage: 61.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAGQFRCDMWDPLLILSQIALMQIVYYGSLGLWLVLVDGLVRSSPSLDRMFNAEILGFSTPPGRLSMMSF
          MAGQFRCDMWDPLLILSQI.LMQIVYYGSLGLWLVLVDGLVRSSPSLDRMFN.EILGFSTPPGRLSMMSF
Retrocopy MAGQFRCDMWDPLLILSQIVLMQIVYYGSLGLWLVLVDGLVRSSPSLDRMFNGEILGFSTPPGRLSMMSF

Parental  VLNALTCALGLLYFIRRGKQCLDFTV
          .L.ALTCALGLLY.IRR..QCLDFTV
Retrocopy ILSALTCALGLLYIIRRRTQCLDFTV

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_1084 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000011943	2 retrocopies	retro_dnov_1417, retro_dnov_1562,
Echinops telfairi	ENSETEG00000014613	2 retrocopies	retro_etel_1084 , retro_etel_710,
Loxodonta africana	ENSLAFG00000008154	2 retrocopies	retro_lafr_230, retro_lafr_360,