RetrogeneDB ID: retro_etel_529

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_8831:149997..150340(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CXCL17
• Ensembl ID: ENSETEG00000009939
• Aliases: None
• Description: chemokine (C-X-C motif) ligand 17 [Source:HGNC Symbol;Acc:19232]

Sequence

>retro_etel_529
CTCCTTCTGTTGTTGCCAATTAACACCAATGTCCAGGGTCTCTAGCAGCCCAAATCCAGGGTCGCCAGAGACCACCAGGG
CCAGCGCCAGGGCTTAGGGAGGTGGCTCTAGGAAGGCAAGCTATGTTGTGAATGCAAACACCAGCTCCAAAAAGTCCCTA
AGGAAAATTTATGACACTAGCAGTGCCGGGGTTGCCAAAGAAATGGTGTCCTTGTGATCACTTCATGAGCAATGTGAAGA
AAAATGGGCATCGAAGGCACCACAGGAAGTCAAACAAGTACTCCAGGCCAGAGGCTGCCAGCAGTTTCTCCAACAGTGCC
AGCTGCCAAGCTTGGCCCTGCCC

Alignment

ORF - retro_etel_529 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.95 %
• Parental protein coverage: 93.39 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LLLLLP-LTLMHGVSSSPNPG-VARGHRGQRQASGRRLQEGGLECECKDQFQKLPK-GKFMALAVLGSPK
          LLLLLP.LT.M..VSSSPNPG.VAR.H.GQRQ..GR.L.EG.L.CECK.Q.QK.PK.GKFM.LAV.G.PK
Retrocopy LLLLLP>LTPMSRVSSSPNPG<VARDHQGQRQGLGRWL*EGKLCCECKHQLQKVPK<GKFMTLAVPGLPK

Parental  KQCPCDHFMSNMKKNRHRRHHRKSNKYFR--ACQQF-LQQCQLASLALP
          K.CPCDHFMSN.KKN.HRRHHRKSNKY.R..A...F.LQQCQL.SLALP
Retrocopy KWCPCDHFMSNVKKNGHRRHHRKSNKYSRPEAASSF<LQQCQLPSLALP

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_529 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	ENSETEG00000009939	1 retrocopy	retro_etel_529 ,