RetrogeneDB ID: retro_etel_1213

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_229442:622..943(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: KXD1
• Ensembl ID: ENSETEG00000003390
• Aliases: None
• Description: KxDL motif containing 1 [Source:HGNC Symbol;Acc:28420]

Sequence

>retro_etel_1213
GCAGCAAAGGAGGAAGTAGAAACGGGCACCCCAGCCTCAGCCTCAAGAGCCTTCTGCAGCCACATCCTGAGCATGAATGT
GCCAAATGATGTCAACGCTATCATGCTGGCCCAGAAGAACATGCTGGACCGCTTTGGCAAGACCAGGGAGATGCTGCTGA
ACTTCAATAACCTGTCAAGTGCCCACCTGCAGCCGGTGAACAGACTCTTCCTGCATCACCTGAGGACTCTGGTGAAGATG
ACAGGGGCCCCAGACAGCAACTTCTGCAGGCTCCAGACCCTGAAAGGGCAGCTGGCTCAGTAGCACCCTGAAACCTTCAG
C

Alignment

ORF - retro_etel_1213 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.36 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AAEKEEEMDAPDSASRVFCSRVLSMVNADDVNAIILAQKNMLDRFEKTNEMLLNFNNLSSARLQQMNERF
          AA..E.E...P.SASR.FCS..LSM....DVNAI.LAQKNMLDRF.KT.EMLLNFNNLSSA.LQ..N..F
Retrocopy AAKEEVETGTPASASRAFCSHILSMNVPNDVNAIMLAQKNMLDRFGKTREMLLNFNNLSSAHLQPVNRLF

Parental  LHHTRTLVEMKRDLDSIFRRVRTLKGKLARQHPEAFS
          LHH.RTLV.M....DS.F.R..TLKG.LA..HPE.FS
Retrocopy LHHLRTLVKMTGAPDSNFCRLQTLKGQLAQ*HPETFS

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_1213 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 6 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000010545	1 retrocopy	retro_btau_689,
Echinops telfairi	ENSETEG00000003390	2 retrocopies	retro_etel_1213 , retro_etel_2129,
Macropus eugenii	ENSMEUG00000013150	1 retrocopy	retro_meug_2148,
Monodelphis domestica	ENSMODG00000003489	1 retrocopy	retro_mdom_1623,
Mus musculus	ENSMUSG00000055553	6 retrocopies	retro_mmus_1117, retro_mmus_3557, retro_mmus_799, retro_mmus_800, retro_mmus_802, retro_mmus_804,
Rattus norvegicus	ENSRNOG00000019971	2 retrocopies	retro_rnor_2808, retro_rnor_812,