RetrogeneDB ID: retro_etel_553

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_9005:76652..76957(-)
• Located in intron of: ENSETEG00000013127

Retrocopy information

• Ensembl ID: ENSETEG00000013132
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: TSLP
• Ensembl ID: ENSETEG00000016511
• Aliases: None
• Description: thymic stromal lymphopoietin [Source:HGNC Symbol;Acc:30743]

Sequence

>retro_etel_553
CAGAGCACAAGGACCCAGTCCGTCCAGGTCCAGCACACGTTCTGTAGAAATCAGGAGTCAGGGTGCTTGAATTTGATCAT
GAACAATAACCTTCAATCCCGAACCTGGCTGCCTGTCCCTGGCCACGGAAACCTTTGCAATTTTAACGAGGGAGACCCTG
ATTCTGTGGTGCCCTGGCTACGAGGCCAGTCAGGTAAATAATACCCAGAAAACGAAGACGAGCAAAAGAGAAGTTAAGCC
AAGATGTCGGGGAAAAAGTCTTAGACCTAATCGTATTGTGGCGCCATTTCATTCGATATTTGCAG

Alignment

ORF - retro_etel_553 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.31 %
• Parental protein coverage: 66.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  RSTSTQSGS--SSFCSNQ-FGCLNLIVN-ITFNPVPGCPSLARETFAISTREILIQRCPGYDTSQVNNAQ
          .ST.TQS......FC.NQ..GCLNLI.N.ITFNP.PGC.SLA.ETFAI.TRE.LI..CPGY..SQVNN.Q
Retrocopy QSTRTQSVQVQHTFCRNQESGCLNLIMN>ITFNPEPGCLSLATETFAILTRETLILWCPGYEASQVNNTQ

Parental  KMKQSKIEVKPRRCR-EKVSDLMALWRQFIQYLR
          K.K.SK.EVKP.RCR.EKV.DL..LWR.FI.YL.
Retrocopy KTKTSKREVKP-RCR>EKVLDLIVLWRHFIRYLQ

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_553 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	ENSETEG00000016511	1 retrocopy	retro_etel_553 ,