RetrogeneDB ID: retro_etel_443

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_7287:141775..142246(+)
• Located in intron of: ENSETEG00000016906

Retrocopy information

• Ensembl ID: ENSETEG00000016912
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000013586
• Aliases: None
• Description: None

Sequence

>retro_etel_443
CACGCGCATTGCCCCAAGCAAGAAGCCCTGAGTAGCGAGCACGCTGCCAAGAGGACACCGTGAAGTCAATGGTTCACAGA
CTGTTTACAGCCATGCACCTTGATGAGTATCAGCAAAGGAAAGAGACGCATTTGCTGGAGAACAATGACCACCTGAAGAA
GCAGCTGCAGCCCCAAACAGCTGAAAGCTCAAACGCAAGGTCGTTCTGAAGCCAGAATCAGCAAGCTCCTGTGGTCTGGG
TTAGCGCTGCTGTCCGCTCAGGGTGGGGGCCTGGCCTGGTTCACCTGGTGGGTGTACTCCTGGGACATCATGGAACCTGT
TACATACTTCATCACATTTGCAAATTCCATGGTCTTTTTTGCATACTTTGTAGTCACTCAACAGGATTACACTTACTCAG
CTGTTAGTGGTAGGCAATTTCTTCACTACTTCTATCAGAAATCAAAGCAAGAACATTTTGATGCGGAGCAA

Alignment

ORF - retro_etel_443 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80. %
• Parental protein coverage: 70.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NVHCPKQEALSSELAAEM-DTVKSMVHRLFTAIHFDEYQRRKETHLLENIDHL-KKQLQPLEQLKARIEG
          ..HCPKQEALSSE.AA...DTVKSMVHRLFTA.H.DEYQ.RKETHLLEN.DHL......P..QLKA...G
Retrocopy HAHCPKQEALSSEHAAKR<DTVKSMVHRLFTAMHLDEYQQRKETHLLENNDHL>RSSCSP-KQLKAQTQG

Parental  RSEARINKLLWCGLALLSAQGGALAWFTWWVYSWDIMEPVTYFLTFANTVVFFAYFVVTXXDYTYSAVSG
          RSEARI.KLLW.GLALLSAQGG.LAWFTWWVYSWDIMEPVTYF.TFAN..VFFAYFVVT..DYTYSAVSG
Retrocopy RSEARISKLLWSGLALLSAQGGGLAWFTWWVYSWDIMEPVTYFITFANSMVFFAYFVVTQQDYTYSAVSG

Parental  RQFLHFFYQRSKQEHFDVEQ
          RQFLH.FYQ.SKQEHFD.EQ
Retrocopy RQFLHYFYQKSKQEHFDAEQ

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_443 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000013586	1 retrocopy	retro_etel_443 ,
Loxodonta africana	ENSLAFG00000002726	1 retrocopy	retro_lafr_1127,
Ochotona princeps	ENSOPRG00000017044	1 retrocopy	retro_opri_646,
Vicugna pacos	ENSVPAG00000009837	1 retrocopy	retro_vpac_642,