RetrogeneDB ID: retro_etel_1696

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_288156:7076..8267(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000008072
• 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_1696
ATTCTCAAAATTCACGACAGAGAGATTTTCGACTCCTGTGGCAATACTACTGTTGAGGGTGAGCTTTACACCGCCAAAGG
TCTCTTCAGAGCTGCCATGTCCCATGGTGCTTCAACTGTTATCTACAAGGCCCTGTAGCTCTGGGACAATGATAAGACCC
TGTGTCAGCGCAAAGGAGTCTCAAAGGCTGTTGAGAACATCAGTGAAATGATTGTGTCTGCCCTGGCAAAAAAAACCCCT
GAACATTGTGGAACAGGAGAAGATCGACAAGCTGATGATTGAGATAGATGGAACTGAGAATAAATCGAAACTTGGTTCAA
ATACCATTCTGGACGTGTCCCTTGCTGTGTGCAAGACTGGAGCTGTTAAGAAGGTATCCCCCTGCACTGTCACATTGCTG
ACTTGGCAGGCAATTCTGAAGTCCTCCTGCCAGTTCCTGCTTTTCAGTGTGATCAGTGCTGACTCTCATGCCAGCAACAA
GCTGGAATTCATGCAGGAATTCATGGTCTTGCCCATTGGAGCAGCCAACTTTAAGGAAACCATGCGCATCCAGGCTGAGG
TGTACCACAACCTGAAGAACATCAACAAGAAGTACGCCAAGTATGCTACCAATGTGGGATGAAAGCAGATTTGCCCCCCA
AATCCTGTAGATCAAAGAACCCTGTATCTGCTTAACAATGCTATTGGGAAAGCCAGTTACACTGCCAAGTTGGTGATTGA
CATGGATGTAGATGCCTCTGAGTTTTTCCGTCTGGGAAGTACAATGTAGACTTCAAGTCTTCTGATGACCCCAGCAGGTA
CATCTCACCTGACCAACGGACAGGCCTATACAAGTCCTTCATTAAGGATGACCCAGTGGTGTCTATTGAAGACCCTTTCT
ACCAGGATGACTGGCATGGTTGGATGAATTTCCCTGCTAGTTCAGCAATCCAGGTGGTAAGCGACGATCTCACAGTGACC
ACCCAAAGCAAATCACCAAGGCTGTGAGGGGGAAGTCGTGCAAGGGCCTCCTGCTCAAAGTGAAATCAGATCGGCTGTGA
GTCTCTGCAGGTGAGTGAGCTGGCCCAGTTCAATGGGTGGGGCATCATGATGTCTTCTCATTCTGGGGAGACCAAGGACA
CTTTCATTGCTGATCTGGTGGTGGGACTTTGCACTGCACAGATCAAGACGGGTGTGCTGTGCTGATCCGAG

Alignment

ORF - retro_etel_1696 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.46 %
• Parental protein coverage: 92.17 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  IEKIWAREILDSRGNPTVEVDLSTAKGLFRAAVPSGASTGIYEALELGDGDKQRYLGQGVLKAVDHINST
          I.KI..REI.DS.GN.TVE..L.TAKGLFRAA...GAST.IY.AL.L.D.DK......GV.KAV..I...
Retrocopy ILKIHDREIFDSCGNTTVEGELYTAKGLFRAAMSHGASTVIYKAL*LWDNDKTLCQRKGVSKAVENISEM

Parental  IAPALVSSG-LSVVEQEKLDNLMLELDGTENKSKFGANAILGVSLAVCKAGAAER-DLPLYRHIAQLAGN
          I..AL.....L..VEQEK.D.LM.E.DGTENKSK.G.N.IL.VSLAVCK.GA......PL..HIA.LAGN
Retrocopy IVSALXXXX>LNIVEQEKIDKLMIEIDGTENKSKLGSNTILDVSLAVCKTGAVKK<GIPLHCHIADLAGN

Parental  SDLILPVPA-FNVINGGSHAGNKLA-MQEFMILPVGAESFRDAMRLGAEVYHTLKGVIKDKYGKDATNVG
          S...LPVPA.F.VI...SHA.NKL..MQEFM.LP.GA..F...MR..AEVYH.LK...K.KY.K.ATNVG
Retrocopy SEVLLPVPA>FSVISADSHASNKLEFMQEFMVLPIGAANFKETMRIQAEVYHNLKNINK-KYAKYATNVG

Parental  DEGGFAPNILENSEALELVKEAIDKAGYTEKIVIGMDVAASEFYR-DGKYDLDFKSPPDPSRCITGDQLG
          ......PN.......L.L...AI.KA.YT.K.VI.MDV.ASEF.R..GKY..DFKS..DPSR.I..DQ..
Retrocopy *KQICPPNPVD-QRTLYLLNNAIGKASYTAKLVIDMDVDASEFFR<SGKYNVDFKSSDDPSRYISPDQRT

Parental  SLYQDFVRNYPVVSIEDPFDQDDWAAWSKFTANVGIQIVGDDLTVT-NPKRIERAVEEKACNCLLLKV-N
          .LY..F....PVVSIEDPF.QDDW..W..F.A...IQ.V.DDLTVT..PK.I..AV..K.C..LLLKV.N
Retrocopy GLYKSFIKDDPVVSIEDPFYQDDWHGWMNFPASSAIQVVSDDLTVT<HPKQITKAVRGKSCKGLLLKV>N

Parental  QIGSVTEAIQACKLAQENGWGVMVSHRSGETEDTFIADLVVGLCTGQIKTGAPCRSE
          QIG...E..Q...LAQ.NGWG.M.S..SGET.DTFIADLVVGLCT.QIKTG..C.SE
Retrocopy QIG--CESLQVSELAQFNGWGIMMSSHSGETKDTFIADLVVGLCTAQIKTGVLC*SE

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_1696 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,