RetrogeneDB ID: retro_etel_1193

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_22581:813..1207(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000016096
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: DTYMK
• Ensembl ID: ENSETEG00000017215
• Aliases: None
• Description: deoxythymidylate kinase (thymidylate kinase) [Source:HGNC Symbol;Acc:3061]

Sequence

>retro_etel_1193
TTAATCAGGGACAAGTTGGACCAGGGCTTCACCTTCGTCGTGGACCGGTACGTCTTCTCTGGGGTCACCTTTATAGCGGC
CAAAGAGAGCTTCTCCCTGGATTGGTGCAAGCAGCCAGACGTGGGCCTCCCCACGCCAGACCTGGTGCTGTTTCTGCAGC
TGCAGCTGGCTGAGGCCACGCGGTGTGGTGGCTTTGACCAGGAGCGATACGAGGACAGGGACTTCCAGGAGCGAGCTTTG
GGCTGCTTCCAGCAGCTCATGCAGGACCTGAGCCTGGTCTGGAAGACTGTCAACGCCTCCCGGAGCATCGAGGATGTGCA
CGAGGAGATCCGCACCCTGACCGAGGAGGCCATCCATGCCACTGCGCACCAGTCGCTGGGGGCGGCTCTGGGTG

Alignment

ORF - retro_etel_1193 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.88 %
• Parental protein coverage: 99.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LIRDKLDQGITLVVDRYAFSGVAFTAAKESFSLDWCKQPDVGLPRPDLVLFLQLQLAEATRRGGFGQERY
          LIRDKLDQG.T.VVDRY.FSGV.F.AAKESFSLDWCKQPDVGLP.PDLVLFLQLQLAEATR.GGF.QERY
Retrocopy LIRDKLDQGFTFVVDRYVFSGVTFIAAKESFSLDWCKQPDVGLPTPDLVLFLQLQLAEATRCGGFDQERY

Parental  EDRAFQERALGCFQQLMQDPSLVWKTVDASRSIEDVHEEIRALTEEAIHAAAHQPLGG-LWV
          EDR.FQERALGCFQQLMQD.SLVWKTV.ASRSIEDVHEEIR.LTEEAIHA.AHQ.LG..LWV
Retrocopy EDRDFQERALGCFQQLMQDLSLVWKTVNASRSIEDVHEEIRTLTEEAIHATAHQSLGA>LWV

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_1193 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000017215	2 retrocopies	retro_etel_1193 , retro_etel_1648,