RetrogeneDB ID: retro_etel_1202

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_227013:9453..9831(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PPP2R2C
• Ensembl ID: ENSETEG00000016038
• Aliases: None
• Description: protein phosphatase 2, regulatory subunit B, gamma [Source:HGNC Symbol;Acc:9306]

Sequence

>retro_etel_1202
GCTGCTCAGTTTTTATTGTCTACCAATGATGAAACAATAAAATTATGGAAAATCAATGAAAGGGACAATAGACCAGAAGT
GTATACCTTGAAAGAGGGAGATAAAAGCTATAGGGACTCTACTACCATCACTACACTAGGAGAACCGGTCTTCAGACCCT
GGATCTAATGGTTGCAGCCAGAGCAATAAGACTACCTGCCAATGCTCATCCATATCACATCAACTCTATTGCTATTAAGA
GTGGCTATGATACATATTTATCTGTGGATGATTTGAAGATTAATCTTTGGCATCTGGAAATTACCCATAGGAGTTTGAAT
ATTGTGGACATGAAGCCTTGCCAATATGGAAGAGCTCATGAAGGTGCTAACAGCAGCC

Alignment

ORF - retro_etel_1202 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.59 %
• Parental protein coverage: 52.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AAHALLSTNDKTIKLWKITERDKRPEGYNLKDEEGKLKALCTVTSLQVPVLKP-MDLMVEVSPRRVFANG
          AA..LLSTND.TIKLWKI.ERD.RPE.Y.LK..........T.T.L..PV..P..DLMV.....R..AN.
Retrocopy AAQFLLSTNDETIKLWKINERDNRPEVYTLKEGDKSYRDSTTITTLGEPVFRP<LDLMVAARAIRLPANA

Parental  HTYHINSISVNSDCETYMSADDLRINLWHLAVTDRSFNIVDIKP-ANMEELTEVITAS
          H.YHINSI...S...TY.S.DDL.INLWHL..T.RS.NIVD.KP.ANMEEL..V.TA.
Retrocopy HPYHINSIAIKSGYDTYLSVDDLKINLWHLEITHRSLNIVDMKP>ANMEELMKVLTAA

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_1202 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	ENSETEG00000016038	1 retrocopy	retro_etel_1202 ,