RetrogeneDB ID: retro_etel_1666

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_286624:43409..43856(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RWDD2A
• Ensembl ID: ENSETEG00000015658
• Aliases: None
• Description: RWD domain containing 2A [Source:HGNC Symbol;Acc:21385]

Sequence

>retro_etel_1666
AGGGACACACTACAACCAAAAATCAAATTTGTAATCGTGCTCCAGATTGAGGAGCCCAAGGTGAAAATGGATTTATAAGT
AACCATGCCACACAGCTATGCAGGCCTACAGCTGTTTGGATGGTCATCTGTGCTTGACAGACAACTTCAGTTGCTCTCAA
CAAAAATCTCACTTCTTACATACAGACTTTTGATCCAGGGAAGATCTATGTGTGTGTGCAGCAATCCAGTGGATACAGGA
TAATAGCTCATCTAAGTATTGAACAAAATGCTGACGTGTGATCCATCTGCACAAGTAAAGACAGTTAAGAACACTTTCCT
CCAAATGTGGAGTTACTGCTACCGGGATATAAGGAAAAATATTTTGGATTCTGGAAAAAAGTTAGATATGACTGGGTTTT
GCATGATAGGAAAGCCTGGCATAATCTGTGTAGAGGGCTTCAAGGAG

Alignment

ORF - retro_etel_1666 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.56 %
• Parental protein coverage: 53.55 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  RETPPPKIEFVVTLQIEEPKVEIYL-PTMRHSHPSVALQLFGWSSALDRHQQLL-LNKSLTSYREMFDP-
          R.T..PKI.FV..LQIEEPKV...L..TM.HS.....LQLFGWSS.LDR..QLL.LNK.LTSY...FDP.
Retrocopy RDTLQPKIKFVIVLQIEEPKVKMDL*VTMPHSY--AGLQLFGWSSVLDRQLQLL<LNKNLTSYIQTFDP<

Parental  RE-IHVCAAIQWIQDNSASY-TLNKKLMYELSAQVKPVKNTLLT-WVYCHAYQQDLRKKILDIGKKLDVT
          RE...VCAAIQWIQDNS.S...LNK.L....SAQVK.VKNT.L..W.YC.....D.RK.ILD.GKKLD.T
Retrocopy REDLCVCAAIQWIQDNSSSK<VLNKMLTCDPSAQVKTVKNTFLQMWSYCY---RDIRKNILDSGKKLDMT

Parental  GLCM-GQPGIICAEGFKE
          G.CM.G.PGIIC.EGFKE
Retrocopy GFCMIGKPGIICVEGFKE

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_1666 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	ENSETEG00000015658	1 retrocopy	retro_etel_1666 ,