RetrogeneDB ID: retro_etel_1881

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_310953:804..1233(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STYX
• Ensembl ID: ENSETEG00000000561
• Aliases: None
• Description: serine/threonine/tyrosine interacting protein [Source:HGNC Symbol;Acc:11447]

Sequence

>retro_etel_1881
ATGGAGGACGTGAAACTGGAGTTCCCTTCCCTCCCTCAGTGCAAAGACGACGCCGAGGAGTGGACCTATCCAATGAGACG
AGAGATGCAGGAAATTTTACCTGGATTGTTTTTAGGTCCATATTCTTCTGCTATGAAAAGCAAGCTACCTATACTACAGA
AACATGGAATAACCCATATAATATGCATAAGACAAAATATTGAAGCAAACTTTATTAAACCAAACTTTCAACAATTATTT
AGATATTTAGTCTTGGATATTGCAGATAATCCAGTTGAAAATATAATACGTTTTTTCCCAATGACTAAAGAATTTATTGA
TGGGAGCTTACAAACTGGAGGAAAAGTTCTTGTCCATGGAAATGCGGGGATCTCGAGGAGTGCTGCCTTTGTTATTGCCT
ATATTATGGAAACATTTGGAATGAAGTAC

Alignment

ORF - retro_etel_1881 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.6 %
• Parental protein coverage: 64.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MEDVKLEFPSLPQCKDDAEEWTYPMRREMQEILPGLFLGPYSSAMKSKLSILQKHGITHIICIRQNIDAN
          MEDVKLEFPSLPQCKDDAEEWTYPMRREMQEILPGLFLGPYSSAMKSKL.ILQKHGITHIICIRQNI.AN
Retrocopy MEDVKLEFPSLPQCKDDAEEWTYPMRREMQEILPGLFLGPYSSAMKSKLPILQKHGITHIICIRQNIEAN

Parental  FIKPNFQQLFRYLVLDIADNPVENIIRFFPMTKEFIDGSLQTGGKVLVHGNAGISRSAAFVIAYIMETFG
          FIKPNFQQLFRYLVLDIADNPVENIIRFFPMTKEFIDGSLQTGGKVLVHGNAGISRSAAFVIAYIMETFG
Retrocopy FIKPNFQQLFRYLVLDIADNPVENIIRFFPMTKEFIDGSLQTGGKVLVHGNAGISRSAAFVIAYIMETFG

Parental  MKY
          MKY
Retrocopy MKY

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_1881 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 9 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000016631	9 retrocopies	retro_dnov_1713, retro_dnov_1720, retro_dnov_1914, retro_dnov_2138, retro_dnov_2186, retro_dnov_2218, retro_dnov_2221, retro_dnov_461, retro_dnov_66,
Echinops telfairi	ENSETEG00000000561	1 retrocopy	retro_etel_1881 ,
Echinops telfairi	ENSETEG00000011289	1 retrocopy	retro_etel_1581,
Monodelphis domestica	ENSMODG00000029372	1 retrocopy	retro_mdom_44,
Mus musculus	ENSMUSG00000053205	1 retrocopy	retro_mmus_96,
Ochotona princeps	ENSOPRG00000016123	1 retrocopy	retro_opri_976,
Rattus norvegicus	ENSRNOG00000007956	1 retrocopy	retro_rnor_256,
Ictidomys tridecemlineatus	ENSSTOG00000014504	1 retrocopy	retro_itri_1365,
Vicugna pacos	ENSVPAG00000012229	1 retrocopy	retro_vpac_464,