RetrogeneDB ID: retro_etel_1750

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_291736:39874..40673(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: WSB2
• Ensembl ID: ENSETEG00000018534
• Aliases: None
• Description: WD repeat and SOCS box containing 2 [Source:HGNC Symbol;Acc:19222]

Sequence

>retro_etel_1750
TGGGAGCTGCAGACAGGGTTCTTGCTTTTGAATCTTCCCGGCCATCAAGATGTCGTGAGAGATCTGAGCTTCACACCCAG
TGGCAGTTTGATCTTGGTCTCTGCATCCCGGGACAAAACTCTTCACATCTGGGACCCGAATAAACATGGTAAACAGATCC
AGGTGTTATCAGGCCACCTGCAATGGGCTTACTGCTGCTCCATCTCCTGGACTGCAGCATGCTGTGCTCTGCAGCTGGAG
AGAAGTCTGTCTTTCTCTGGAGCATGCGACCCTACACACTAATCCGGAAGCTGGAGGGCCGCCAGAGCAGTGTCATCTCT
TGCGACTTCTCCCCTGACTCGGCCTTGCTTGTCACTGCTTCCTACCACACCAACGTGATCATGTGGGACCCCTACACTGG
TGAGGGGCCGCGGTCACTCCACCACATCCAGCTCGACCCCCCATGGATGACAGTGATGTGCACATCAGCTCACTGAGATG
CGTGTGCTTCTCTCCACAAGGCCTGGATCTGGCCACAGTGGCGGATGACAGGCTCCCCAGCACCTGGGCTCTGGAACTGA
AAGCTCCCGTCGTGGTTGCTCCCATGACCAATGGTCTGTGTGGCACCTTCTTTCCACATGACGGAGTGATTGCCACAGGG
ACAAGAGATGGTCACGTCCAGTTCTGGACGGCTCCACGGGTCCTCTCCTCCCTGAAGCACTTATGTCGGAAAGCCCTCCG
AAGTTTCCCGACAGCTTACCAAGTCCCAGCACTGCCAATACCCAAGAAGATGAAAGAGTTCCTCACATACAGGACTTTC

Alignment

ORF - retro_etel_1750 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.22 %
• Parental protein coverage: 66.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  WEVQTGFLLLSLSGHQDVVRDLSFTPSGSLILVSASRDKTLRIWDLNKHGKQIQVLSGHLQWVYCCSIS-
          WE.QTGFLLL.L.GHQDVVRDLSFTPSGSLILVSASRDKTL.IWD.NKHGKQIQVLSGHLQW.YCCSIS.
Retrocopy WELQTGFLLLNLPGHQDVVRDLSFTPSGSLILVSASRDKTLHIWDPNKHGKQIQVLSGHLQWAYCCSIS<

Parental  PDCSMLCSAAGEKSVFLWSMRSYTLIRKLEGHQSSVVSCDFSPDSALLVTASYDTNVIMWDPYTGERLRS
          .DCSMLCSAAGEKSVFLWSMR.YTLIRKLEG.QSSV.SCDFSPDSALLVTASY.TNVIMWDPYTGE..RS
Retrocopy LDCSMLCSAAGEKSVFLWSMRPYTLIRKLEGRQSSVISCDFSPDSALLVTASYHTNVIMWDPYTGEGPRS

Parental  LHHTQLDPP-MDDSDVHISSLRSVCFSPEGLYLATVADDRLLRIWALELKAPVAFAPMTNGLCCTFFPHG
          LHH.QLDPP.MDDSDVHISSLR.VCFSP.GL.LATVADDRL...WALELKAPV..APMTNGLC.TFFPH.
Retrocopy LHHIQLDPP<MDDSDVHISSLRCVCFSPQGLDLATVADDRLPSTWALELKAPVVVAPMTNGLCGTFFPHD

Parental  GVIATGTRDGHVQFWTAPRVLSSLKHLCRKALRSFLTTYQVLALPIPKKMKEFLTYRTF
          GVIATGTRDGHVQFWTAPRVLSSLKHLCRKALRSF.T.YQV.ALPIPKKMKEFLTYRTF
Retrocopy GVIATGTRDGHVQFWTAPRVLSSLKHLCRKALRSFPTAYQVPALPIPKKMKEFLTYRTF

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_1750 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003651	1 retrocopy	retro_chof_870,
Echinops telfairi	ENSETEG00000004321	1 retrocopy	retro_etel_1046,
Echinops telfairi	ENSETEG00000018534	2 retrocopies	retro_etel_1750 , retro_etel_2174,
Microcebus murinus	ENSMICG00000005913	1 retrocopy	retro_mmur_1573,
Myotis lucifugus	ENSMLUG00000002114	1 retrocopy	retro_mluc_2097,
Macaca mulatta	ENSMMUG00000010236	1 retrocopy	retro_mmul_1466,
Mus musculus	ENSMUSG00000029364	1 retrocopy	retro_mmus_810,