RetrogeneDB ID: retro_etel_246

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_4166:13048..13896(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000011907
• Aliases: None
• Description: None

Sequence

>retro_etel_246
TTCTGAGAAATAACCGTGAGCCCCTTTTCTTGTGAACACTGTAACTGGAGCAATCTAGAGTTCCAGTGGGCAGGCAGGAG
CCAGGAGCACGGAGTGCACTCCATTGGACAGTCCGTGCCCAGGAGGACGTGATCAGAGAAGTGCTGCAGACTGACACAGC
CACCGCAAGCATCCCTGAACTGGATTTTGAAATCCCCGCTTTTCAGCCAGAAGGGAGCTCTGACCCGTGCTGAAGAACTG
GACCTCCATGCTACCACTGGACGGGGGCAGGGCCTGCCCCTGCGAAGGGCAAGTGAAGAAACCACTGCTGAAGAAAGACT
ATGAGTTCATCGTGGAACGGAAGCAGGCTAAAGCCAGTGGTCACTTTGGTCATTGCTGAGCCCATTAGGGAACAACTTTG
TGGAAAACCCATTTGCTCCCAGAAAGATGATGCCCCCATGATGACATGTTCTAACCAGACTTTAAAGCTGGAGGAGATGC
TGGGCCTCCAGGCTGCAAAGCCAGAAGAGGGTGGTCTCAGAAAGGAAGTGCTACAGTCCAATACAAACTGCCTGGATTGC
CAGGCTCCGGCTCAGACCAATATGCAGCTAGTACATATCTCACTTTAAGAGGATGATCATCATGGTTGCCAACTGTGGGA
ACACTGGGCCTAGGACCAAGGAGGTGACATCTCAGGGTACGGTAAAGCCCTTGGTCACCAGGATCACCCTTCATGTCACA
GACCCTTCTGAGATGACCAGAGACTTCCTCAAGCCTGTGATGTGCAGTGTGGCAATCCCAGAGCTGGAATTGGAACTGGG
ACTGGCTGTCCTCGGAGCCAGCTCACCACTCAGGAGGGGCTGCTGAAG

Alignment

ORF - retro_etel_246 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.41 %
• Parental protein coverage: 63.1 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  FREIIVSSFSCEHCNWTNTEIQSAGRIQDQGVRYT-LTVRGQEDMNREVVKTDSATTRIPELDFEIPAF-
          F.EI.VS.FSCEHCNW.N.E.Q.AGR.Q..GV.....TVR.QED..REV..TD.AT..IPELDFEIPAF.
Retrocopy F*EITVSPFSCEHCNWSNLEFQWAGRSQEHGVHSI<WTVRAQEDVIREVLQTDTATASIPELDFEIPAF>

Parental  SQKGALTTVEGLITRAISGLEQDQPTRRASEETLAE-RIDEFIV-NLKALKQVASPFTLIIDDPS-GNSF
          SQKGALT..E.L...A..G..Q..P.RRASEET.AE....EFIV.N...LK.V....TL.I..P..GN.F
Retrocopy SQKGALTRAEELDLHATTGRGQGLPLRRASEETTAE>KDYEFIV>NGSRLKPVV---TLVIAEPI>GNNF

Parental  VENPFAP-QRDDALVITHYNRTSKQEEMLGLQAEVPEEKPEEDDLRNEVLQFSTNCPECSAPAQTNMKLV
          VENPFAP.Q.DDA...T..N.T.K.EEMLGLQA.....KPEE..LR.EVLQ..TNC..C.APAQTNM.LV
Retrocopy VENPFAP<QKDDAPMMTCSNQTLKLEEMLGLQAA----KPEEGGLRKEVLQSNTNCLDCQAPAQTNMQLV

Parental  QIP-HFKEVIIMATNCENCGHRT-NVKSGGAVEPLGTRITLHVTDPSDMTRDLLKSETCSVEIPELEFEL
          .I.......I..A.NC.N.G.RT..V.S.G.V.PL.TRITLHVTDPS.MTRD.LK...CSV.IPELE.EL
Retrocopy HIS>FKRMIIMVA-NCGNTGPRTKEVTSQGTVKPLVTRITLHVTDPSEMTRDFLKPVMCSVAIPELELEL

Parental  GMAVLG-GKFTTLEGLLK
          G.AVLG....TT.EGLLK
Retrocopy GLAVLG<SQLTTQEGLLK

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_246 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 10 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011907	1 retrocopy	retro_etel_246 ,
Homo sapiens	ENSG00000109917	1 retrocopy	retro_hsap_3639,
Gorilla gorilla	ENSGGOG00000000664	1 retrocopy	retro_ggor_2455,
Myotis lucifugus	ENSMLUG00000014012	1 retrocopy	retro_mluc_2167,
Macaca mulatta	ENSMMUG00000020287	1 retrocopy	retro_mmul_1808,
Mus musculus	ENSMUSG00000032078	2 retrocopies	retro_mmus_3602, retro_mmus_3701,
Otolemur garnettii	ENSOGAG00000009977	1 retrocopy	retro_ogar_506,
Pongo abelii	ENSPPYG00000025914	1 retrocopy	retro_pabe_2986,
Pan troglodytes	ENSPTRG00000004312	1 retrocopy	retro_ptro_2464,
Sus scrofa	ENSSSCG00000015066	1 retrocopy	retro_sscr_1150,