RetrogeneDB ID: retro_etel_448

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_7373:9285..9964(+)
• Located in intron of: ENSETEG00000017707

Retrocopy information

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

Parental gene information

• Parental gene symbol: FBXL2
• Ensembl ID: ENSETEG00000016506
• Aliases: None
• Description: F-box and leucine-rich repeat protein 2 [Source:HGNC Symbol;Acc:13598]

Sequence

>retro_etel_448
GAAGATGAAGCTCAGAAGTACATAGGTGCACATTGGCCTGAAACTGATGACTTTGAACTTACAGACTTGCTTGCAAACCA
CTGATGACGGTCTCATTATTATATGCCGAGGGTACCGTAAGTTACAGTCCCTCTGTGCCTCTGGCTGCTCCAACATCACA
GATACCATCCTGGATGCTCTAGGTCCGAACTGCCCACGGCTTAGAATACTAGAAGTGGCAAGACATTCTCAGTTAACAGA
TATGGGCTTTACCACTCTGGCTAGGAATTGCCATGAACTTGAAAAGATGGATCTGGAAGAATGTGTTCAGATAACAGACA
GCACATTAATCCAACTTTCTATACATTGACCTGGTCTTCAAGTATTGAGTCTTTCTCACGGTGAGCTGATCACAGATGAT
GGAATTCGTCACCTGGGAAATGGCGCCCATGACCAGCTGGAAGTGACTGAGCTGGACAATTGCCCACTAATCACAGATGC
GTCCCTGGAGCGCTTGAAGAGTTGTCGCAGTCTCGAGAGGATAGAACTCTATGACTGCCAGCAAGTCACATGGGCTGGAA
CCAAGAGACTTGGGGCCCATTTACCCAATATGAAAGTCCACGCCTACTTCGCACCTGTCACTCCACCCCCATCAGTAGGG
GGCAGCAGACCGCGATCATGCAGATGCTGCATCATCCTA

Alignment

ORF - retro_etel_448 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.12 %
• Parental protein coverage: 57. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  EDEALKHIQNYCHE-LVSLNLQSCSRITDEGVVQICRGCQRLQALCVSGCSNLTDASLTALGLNCPRLQI
          EDEA.K.I.....E.L..LNLQ.C...TD.G...ICRG...LQ.LC.SGCSN.TD..L.ALG.NCPRL.I
Retrocopy EDEAQKYIGAHWPE>LMTLNLQTCLQTTDDGLIIICRGYRKLQSLCASGCSNITDTILDALGPNCPRLRI

Parental  LEAARCSHLTDAGFTLLARNCHDLEKMDLEECVLITDSTLVQLAIHCPKLQALSLSHCELITDDGILHLS
          LE.AR.S.LTD.GFT.LARNCH.LEKMDLEECV.ITDSTL.QL.IH.P.LQ.LSLSH.ELITDDGI.HL.
Retrocopy LEVARHSQLTDMGFTTLARNCHELEKMDLEECVQITDSTLIQLSIH*PGLQVLSLSHGELITDDGIRHLG

Parental  NSTCGHTRLRVLELDNCLLITDAALEHLESCQGLERLELYDCQQVTRAGIKRMRAQLPHVKVHAYFAPVT
          N....H..L.V.ELDNC.LITDA.LE.L.SC..LER.ELYDCQQVT.AG.KR..A.LP..KVHAYFAPVT
Retrocopy NG--AHDQLEVTELDNCPLITDASLERLKSCRSLERIELYDCQQVTWAGTKRLGAHLPNMKVHAYFAPVT

Parental  PPTAVGGSGQRLCRCCVVL
          PP..VGGS..R.CRCC..L
Retrocopy PPPSVGGSRPRSCRCCIIL

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_448 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 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000016506	2 retrocopies	retro_etel_448 , retro_etel_563,