RetrogeneDB ID: retro_etel_1345

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_250390:923..1646(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EED
• Ensembl ID: ENSETEG00000017442
• Aliases: None
• Description: embryonic ectoderm development [Source:HGNC Symbol;Acc:3188]

Sequence

>retro_etel_1345
ACCAAGAGGGAAGTGCCGACTGCACCGGCGGGAACAGACATGCCTGCAGCCAAGAAGCAGAAGCTAAGCAGTGACAAGAA
CAGCAACCCGGACCTCACTGGAGATGAGAAGGATGATGCTGTCAGTATAGAAAGTGGTATAAACACTGAACGCCCTGATA
CACCTACAAACACAGCAAATGCACCTGGAAGTAAAAGTTGGGGAAAGGGAAAATGGAAGTCCAAAAAATGCAAATATTCT
TTCAAATGTGTAAATAGTCTCAAGGAAGATCAGAACCAACCATTATTTGGAGTTCAATTTACCTGGCATAGTAAAGAAGG
AGATCCATTAGTGTTTGCAACTGTAGGAAGCAGCAGGGTTACCCTATGTGAATGTCACTCCCAAAGAGAAATCCTGTTGT
TGCAATCTTATGTGGATGCTGATGCTGATGAAAACTTTTATACTTGTGCATGGACATACGATAGCAATACAAGCTATCCT
CTGCTGGCTGTGGCTGGCTCTAGAGGCACAATTAGGATAATCAACCCTATAACAATGCAGTGTGTAAAGCACAATGTTGG
TCATGAAAATGCTATCAATGAACTGAAATTCCACCCAGGAGATCCAAATCTCCTCTTATCAGTAAGTAAAGATCATGCTT
TACGATTATGGAATATCCAAACAGACACTCTGCTGGCAATATTTGGAGGAGTAGAAGGGCACAGAGATGAAGTTCTAAGT
GCT

Alignment

ORF - retro_etel_1345 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.48 %
• Parental protein coverage: 57.42 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SEREVPTAPAGTDMPVAKKQKLSSDENSNPDLSGDENDDAVXXXXXXXXXXXXXXTNTA-APGRKSWGKG
          ..REVPTAPAGTDMP.AKKQKLSSD.NSNPDL.GDE.DDAV..............TNTA.APG.KSWGKG
Retrocopy TKREVPTAPAGTDMPAAKKQKLSSDKNSNPDLTGDEKDDAVSIESGINTERPDTPTNTANAPGSKSWGKG

Parental  KWKSKKCKYSFKCVNSLKEDHNQPLFGVQFNWHSKEGDPLVFATVGSNRVTLYECHSQGEIRLLQSYVDA
          KWKSKKCKYSFKCVNSLKED.NQPLFGVQF.WHSKEGDPLVFATVGS.RVTL.ECHSQ.EI.LLQSYVDA
Retrocopy KWKSKKCKYSFKCVNSLKEDQNQPLFGVQFTWHSKEGDPLVFATVGSSRVTLCECHSQREILLLQSYVDA

Parental  DADENFYTCAWTYDSNTSHPLLAVAGSRGIIRIINPITMQCIKHYVGHGNAINELKFHPRDPNLLLSVSK
          DADENFYTCAWTYDSNTS.PLLAVAGSRG.IRIINPITMQC.KH.VGH.NAINELKFHP.DPNLLLSVSK
Retrocopy DADENFYTCAWTYDSNTSYPLLAVAGSRGTIRIINPITMQCVKHNVGHENAINELKFHPGDPNLLLSVSK

Parental  DHALRLWNIQTDTLVAIFGGVEGHRDEVLSA
          DHALRLWNIQTDTL.AIFGGVEGHRDEVLSA
Retrocopy DHALRLWNIQTDTLLAIFGGVEGHRDEVLSA

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_1345 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000017442	1 retrocopy	retro_etel_1345 ,