RetrogeneDB ID: retro_etel_2120

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_66085:4546..5668(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000015372
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ENO2
• Ensembl ID: ENSETEG00000007582
• Aliases: None
• Description: enolase 2 (gamma, neuronal) [Source:HGNC Symbol;Acc:3353]

Sequence

>retro_etel_2120
CTGGGCAAAGGGGTCTCACAGGCTGTTGAGCACATCAATACTACAATTGGGCCTGCCCTGGTTAGCAAGAAGCTGAACGT
TACGGAACAGGAACAGATCGACAAGCTGATGATTGAGATGGATGGAACTGAGAATAAATCAAAATTTGGTGCAAATGCCA
TTCTGGGCAAGTCCCTCACTGTGTGCAAGGCCAGAGCTGTTGAGAAGGGAGTCCCCCTGTACCATCACCTTGCTGACTTG
GCCGGCAATTATGAAGTTGTCCTGCCAGCTCCTGCTTTCAATGTGATCAACGGCGGCTCCCACGCCGGCAACAAGCTGGC
CATGCAGGAGCTCATGATCCTCCCCGTCAGGGCAGCCAACTTCAAGGAGGCCATGCGCATTGGGGCCGAGGTGTACCACA
ACCTGAAGAACGTCATCAAGGAGAAGTATGGCAAGGATGCCACCAATGTTGGGGATGAAGGCGGATTTGCCCCCAACATC
TTGGAGAACAAAGAAGCCCTGGAGCTGCTGATGAATGCTATTGGGAAAGCTGGTTACACCGACAAGGTGGTGATTGCCAT
GGACGTAGCTGCCTCCGAGTTCTTCAGGTCTGGGAAATACCACCTAGACTTCAAGTCTCCTGATGACCCCAGAGGGTACA
TCTCACCTGACCAACTGGCAGACCTGTACAAGTCCTTCATCACGGACTACCCAGTGGTGTCTATCAAAGACCCCTTTGAC
CAGGATGACTGGGACGCTTGGGCCAAGTTCATTGCCAGTTCAGGGATCCAGGTGGTAGGGGACCATCTCACAGTGACCAA
CCCGAAGTGAATTGCCAAGGCCGTGGGCGAGAAGTCGTGCAACTGCCTCCTGCTCAAAGTGAACCAGATCAGCTCCTCGA
CTGAGTCTCTGCAGGCATGCAAGCTGGCCCAGTCCATTGGGTGGGGCATCATGGTGTCTCATTGTTCTCGGGAGACTGAG
GATACTTTCATTGCTGACCTGGTGGTGGGACTCTGCACTGGACAGATCAAGACTGGTGCACCATGCAGATCTGAGTGCCT
GGCCAAGTACAACCAGATCCTCAGAATTGAAGAGGAGCTGGGCAGCAAGGCCAAGTTTGCTGGCCAGAAGTTCAGAAATC
CC

Alignment

ORF - retro_etel_2120 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.87 %
• Parental protein coverage: 86.18 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LGQGVLKAVDHINSTIAPALVSSGLSVVEQEKLDNLMLELDGTENKSKFGANAILGVSLAVCKAGAAERD
          LG.GV..AV.HIN.TI.PALVS..L.V.EQE..D.LM.E.DGTENKSKFGANAILG.SL.VCKA.A.E..
Retrocopy LGKGVSQAVEHINTTIGPALVSKKLNVTEQEQIDKLMIEMDGTENKSKFGANAILGKSLTVCKARAVEKG

Parental  LPLYRHIAQLAGNSDLILPVPAFNVINGGSHAGNKLAMQEFMILPVGAESFRDAMRLGAEVYHTLKGVIK
          .PLY.H.A.LAGN....LP.PAFNVINGGSHAGNKLAMQE.MILPV.A..F..AMR.GAEVYH.LK.VIK
Retrocopy VPLYHHLADLAGNYEVVLPAPAFNVINGGSHAGNKLAMQELMILPVRAANFKEAMRIGAEVYHNLKNVIK

Parental  DKYGKDATNVGDEGGFAPNILENSEALELVKEAIDKAGYTEKIVIGMDVAASEFYRDGKYDLDFKSPPDP
          .KYGKDATNVGDEGGFAPNILEN.EALEL...AI.KAGYT.K.VI.MDVAASEF.R.GKY.LDFKSP.DP
Retrocopy EKYGKDATNVGDEGGFAPNILENKEALELLMNAIGKAGYTDKVVIAMDVAASEFFRSGKYHLDFKSPDDP

Parental  SRCITGDQLGSLYQDFVRNYPVVSIEDPFDQDDWAAWSKFTANVGIQIVGDDLTVTNPKRIERAVEEKAC
          ...I..DQL..LY..F...YPVVSI.DPFDQDDW.AW.KF.A..GIQ.VGD.LTVTNPK.I..AV.EK.C
Retrocopy RGYISPDQLADLYKSFITDYPVVSIKDPFDQDDWDAWAKFIASSGIQVVGDHLTVTNPK*IAKAVGEKSC

Parental  NCLLLKVNQIGSVTEAIQACKLAQENGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSERLAKY
          NCLLLKVNQI.S.TE..QACKLAQ..GWG.MVSH.S.ETEDTFIADLVVGLCTGQIKTGAPCRSE.LAKY
Retrocopy NCLLLKVNQISSSTESLQACKLAQSIGWGIMVSHCSRETEDTFIADLVVGLCTGQIKTGAPCRSECLAKY

Parental  NQLMRIEEELGGEARFAGHNFRNP
          NQ..RIEEELG..A.FAG..FRNP
Retrocopy NQILRIEEELGSKAKFAGQKFRNP

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_2120 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 4 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000014523	1 retrocopy	retro_cfam_320,
Echinops telfairi	ENSETEG00000007582	8 retrocopies	retro_etel_1077, retro_etel_1696, retro_etel_1837, retro_etel_2120 , retro_etel_227, retro_etel_286, retro_etel_30, retro_etel_544,
Felis catus	ENSFCAG00000004282	1 retrocopy	retro_fcat_1423,
Microcebus murinus	ENSMICG00000001774	1 retrocopy	retro_mmur_362,