RetrogeneDB ID: retro_etel_544

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_8957:294582..295517(+)
• Located in intron of: ENSETEG00000015803

Retrocopy information

• Ensembl ID: ENSETEG00000015808
• 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_544
AAAGGGGTCTCAAAGGCTGTTGAGCACATCAATAAAACGATTGCGCCTGCCCTGGTTAGCAAGAAGCTGACCGTGACGGA
ACAGGAAAAGATCGACAAGCTGATGATTGAGATGGGTGGAACTGAGAATAAATCAAAATTTGGTGCAAATGCCATTCTGG
GCGTGTCCCTCGCTGTGAGCAAGGCCGGAGCTGTTGAGAAGGGAGTCCCCCTATACCGTCACATTGCTGACTTAGCTGGC
AATTCCGAAGTTATCTTGCTAGTTCCTGCTTTCAATGTGATCAACGGCGGCTCCCATGCCGGCAACAAGCTGGCCATGCA
GGAGTTCATGATCCTCCCCGTCCGGGCAGCCAACTTCAAGGAGGCCATGCGCATCGGGGCCGAGGTGTACCACAACCTGA
AGAACGTCATCAAGGAGAAGTAGGGCAAGGATGCCACCCATGTCGGGGATGAAGACGGATTTGCCCCAACATCTTGGACA
ACAAAGTAGTCCTGGGGCTGCTGAAGAATGCTATTGGGAAAGCTGGTCACACCGACAAGGTGGTGATTGGCATGGACGTA
GCTGCCTCTGAGTTCTTCAGGTCTGGGAAATAGGACCTAGACTTCAAGTCTCCTGATGACCCCAGCAGGTGCATCTCACC
TGACCAACTGGCGGACCTGTACAAGTCCTTCATCACGGACTACCCAGTGGTGTCTATCAAAGACCCCTTCGACCAGGATG
ACTGGGACGCTTGGGCAAAGTTCACTGCCAGTTCAGGGATCCAGGTGGTAGGGGACGATCTCACAGTGACCAACCCGAAG
CGAATCGCCAAGGCCGTGGGCGAGAAGTCGTGCAACTGCCTCCTGCTCAAAGTGAACCAGATCGGCTCCGTGACCGAATC
TCTGCAGGCGTGCAAGCTGGCCCAGTCCAATGGGTGGGGTGTCATGGTGTCTCAT

Alignment

ORF - retro_etel_544 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77. %
• Parental protein coverage: 71.89 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QGVLKAVDHINSTIAPALVSSGLSVVEQEKLDNLMLELDGTENKSKFGANAILGVSLAVCKAGAAERDLP
          .GV.KAV.HIN.TIAPALVS..L.V.EQEK.D.LM.E..GTENKSKFGANAILGVSLAV.KAGA.E...P
Retrocopy KGVSKAVEHINKTIAPALVSKKLTVTEQEKIDKLMIEMGGTENKSKFGANAILGVSLAVSKAGAVEKGVP

Parental  LYRHIAQLAGNSDLILPVPAFNVINGGSHAGNKLAMQEFMILPVGAESFRDAMRLGAEVYHTLKGVIKDK
          LYRHIA.LAGNS..IL.VPAFNVINGGSHAGNKLAMQEFMILPV.A..F..AMR.GAEVYH.LK.VIK.K
Retrocopy LYRHIADLAGNSEVILLVPAFNVINGGSHAGNKLAMQEFMILPVRAANFKEAMRIGAEVYHNLKNVIKEK

Parental  YGKDATNVGDEGGFAP-NILENSEALELVKEAIDKAGYTEKIVIGMDVAASEFYRDGKYDLDFKSPPDPS
          .GKDAT.VGDE.GFAP.NIL.N...L.L.K.AI.KAG.T.K.VIGMDVAASEF.R.GK.DLDFKSP.DPS
Retrocopy *GKDATHVGDEDGFAP<NILDNKVVLGLLKNAIGKAGHTDKVVIGMDVAASEFFRSGK*DLDFKSPDDPS

Parental  RCITGDQLGSLYQDFVRNYPVVSIEDPFDQDDWAAWSKFTANVGIQIVGDDLTVTNPKRIERAVEEKACN
          RCI..DQL..LY..F...YPVVSI.DPFDQDDW.AW.KFTA..GIQ.VGDDLTVTNPKRI..AV.EK.CN
Retrocopy RCISPDQLADLYKSFITDYPVVSIKDPFDQDDWDAWAKFTASSGIQVVGDDLTVTNPKRIAKAVGEKSCN

Parental  CLLLKVNQIGSVTEAIQACKLAQENGWGVMVSH
          CLLLKVNQIGSVTE..QACKLAQ.NGWGVMVSH
Retrocopy CLLLKVNQIGSVTESLQACKLAQSNGWGVMVSH

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_544 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,