RetrogeneDB ID: retro_etel_332

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_5423:29935..30589(+)
• Located in intron of: ENSETEG00000015568

Retrocopy information

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

Parental gene information

• Parental gene symbol: TK1
• Ensembl ID: ENSETEG00000002133
• Aliases: None
• Description: thymidine kinase 1, soluble [Source:HGNC Symbol;Acc:11830]

Sequence

>retro_etel_332
ATGAGTTGCATCAACCTGCCCACTGTGTTGCCCAGCTCCCCCAGCAAGACCCGCGGCCAGGTCCAGGTGATCCTCGGACC
CATGTTCTCAGGGAAAAGCACGGAACTGATGAGACGTGTCTGCCGCTTCCAGGTTGCACAGTACAAGTGTCTGGTGATCA
AGTACGCTAAGGACATCCGCTACGGCAGTGGCTTGTCAACCCACGACCGGAACACCATGGAGGCGCTGCCTGCCTGCCTG
CTCCGGGATGTGACCCAGGAGGCCCTGGGCGTAGCGGTCATTGGCATTGATGAAGGGCAGTTTTTCCCCGACATCGTGGA
GTTCAGCAAGGCCATGGCCAACGCTGGGAAGACAGTGATTGTGGTTGCCTTGGATGAAACCTTCCAGAAGAAGGCCTTCG
AGAGCATCCTGAACCTGGTGCCGCTGGCCGAGAGCATGGTGAAGCTGACTGCCGTGTGCATGGAGTGTTTCCGCGAGGCT
GCCTACACCAAGAGGCTGGGTGCAGAGAAGGAGGTGGAGGTGATCGGCGGGGCAGACAAGTACCACTCAGTATGCCGTCT
CTGCTACTTCAAGAAGGCTGCCGGGCAGGACAAGGAGAACTGCCCAGTGCCGGGGAGGCTGGGGGAGATGCCGGCCCGGA
AGCTCTTTGCCCCC

Alignment

ORF - retro_etel_332 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.87 %
• Parental protein coverage: 99.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSCVNLPTVLPGSPSKTRGQVQVILGPMFSGKSTELMRRVRRFQVAQYKCLVIKYAKDIRYGSGLSTHDR
          MSC.NLPTVLP.SPSKTRGQVQVILGPMFSGKSTELMRRV.RFQVAQYKCLVIKYAKDIRYGSGLSTHDR
Retrocopy MSCINLPTVLPSSPSKTRGQVQVILGPMFSGKSTELMRRVCRFQVAQYKCLVIKYAKDIRYGSGLSTHDR

Parental  NTMEALPACLLRDVTQEALGVAVIGIDEGQFFPDIVEFSEAMANAGKTVIVAALDGTFQRKAFGSILNLV
          NTMEALPACLLRDVTQEALGVAVIGIDEGQFFPDIVEFS.AMANAGKTVIV.ALD.TFQ.KAF.SILNLV
Retrocopy NTMEALPACLLRDVTQEALGVAVIGIDEGQFFPDIVEFSKAMANAGKTVIVVALDETFQKKAFESILNLV

Parental  PLAESVVKLTAVCMECFREAAYTKRLGAEKEVEVIGGADKYHSVCRLCYFKKAAGQDKENCPVPGRLGEM
          PLAES.VKLTAVCMECFREAAYTKRLGAEKEVEVIGGADKYHSVCRLCYFKKAAGQDKENCPVPGRLGEM
Retrocopy PLAESMVKLTAVCMECFREAAYTKRLGAEKEVEVIGGADKYHSVCRLCYFKKAAGQDKENCPVPGRLGEM

Parental  PARKLFAP
          PARKLFAP
Retrocopy PARKLFAP

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_332 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000002133	1 retrocopy	retro_etel_332 ,
Macropus eugenii	ENSMEUG00000002886	1 retrocopy	retro_meug_129,
Monodelphis domestica	ENSMODG00000001854	2 retrocopies	retro_mdom_227, retro_mdom_691,
Mus musculus	ENSMUSG00000025574	1 retrocopy	retro_mmus_3238,
Rattus norvegicus	ENSRNOG00000047314	2 retrocopies	retro_rnor_1914, retro_rnor_2057,