RetrogeneDB ID: retro_etel_211

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_3697:242945..243468(+)
• Located in intron of: ENSETEG00000016148

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM98B
• Ensembl ID: ENSETEG00000019041
• Aliases: None
• Description: family with sequence similarity 98, member B [Source:HGNC Symbol;Acc:26773]

Sequence

>retro_etel_211
TTCGTAAAAGAAATGGCGTGTCCATATTCTGCACGCATATCAGGGCATACTCAAGACCGTTTAAAAGAGGACGACTGTTG
GCAAAGCCTGTTATTTTAAAGTATGGAGTTTCAAGCTTTACAGATATTGCAGAACCAGAAACTTACAAGATCTCAACTAG
ACGAAAATCATGAAATGCATTAAGAAGTTAAAGCAATCTGTGACACCCTTGCTGTACCCAAGTCAACAACTTCCGACGTT
CTGCTTATGCTAAGCCGAGTGGCAGCAAAGGTGAAGGACCTTCTCGCAAAAGTCCAGAGAAACCATGTGGGGAAACCACT
GTTGAATTGGATTTAAATCAGGAAGAGGCGGAACAGCTAGAAAGAACCCACGATGCTCTTTCTCTGAGCATGAATGCTGC
AGGCGCATGCTCGTGAAGCGTTTAGATGTGACTGGACAGTCCGTTGGGAGATCTGATAGAGCAGAGGTCAAAACAGACAA
CAAAGCAAGAATTTACCAACCTAAGCCGTATGCTCGGTCACCC

Alignment

ORF - retro_etel_211 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.88 %
• Parental protein coverage: 56.49 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  FLKEMACPYSALISGDVNDRLKKDDL-KLLLFLSTELQALQILQNKKLKSSQLDKKSEIYQEVQAICDTL
          F.KEMACPYSA.ISG...DRLK.DD....LLF.S.E.QALQILQN.KL..SQLD...E...EV.AICDTL
Retrocopy FVKEMACPYSARISGHTQDRLKEDDCWQSLLF*SMEFQALQILQNQKLTRSQLDENHEMH*EVKAICDTL

Parental  AVPKSTTSDVPLMLSQVEAKVKDILAKVQNNHVGKPLL-KIDLNQEKAEQLEKINDALC-CEYECRRRML
          AVPKSTTSDV.LMLS.V.AKVKD.LAKVQ.NHVGKPLL...DLNQE.AEQLE...DAL...E.EC.RRML
Retrocopy AVPKSTTSDVLLMLSRVAAKVKDLLAKVQRNHVGKPLL<ELDLNQEEAEQLERTHDALS<SEHECCRRML

Parental  VKRLDVTVQSFGWSDRAKVKTDDIARIYQPKRYALSP
          VKRLDVT.QS.G.SDRA.VKTD..ARIYQPK.YA.SP
Retrocopy VKRLDVTGQSVGRSDRAEVKTDNKARIYQPKPYARSP

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_211 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000019041	1 retrocopy	retro_etel_211 ,
Pongo abelii	ENSPPYG00000006336	1 retrocopy	retro_pabe_832,
Rattus norvegicus	ENSRNOG00000005366	1 retrocopy	retro_rnor_680,