RetrogeneDB ID: retro_etel_1882

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_311140:128021..128483(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000001007
• Aliases: None
• Description: None

Sequence

>retro_etel_1882
AGTGATTCAAGCGCTAGAGATTCCCAAGAAGAATTTCTGGAGACTCCCTGGAAGGAGAGATCAAAGCCTGAAGAACCCTC
AGATTTAATTGGTCCAGAGGCTCCAAAAACACTGGCCTCACAAGATGATAAACCTTTGAACTATGGCTACGCTCTCTTAC
CTGGTGAAGGTGCAGCAATGGCTGAGTATGTGAAAGCTGGAAAGCGCATCCCACGAAGAGGTGAAATTGGCTTGACAAGT
GAAGAAATTGCCTCATTCGAATGTTCAGGTTACGTCATGAGTGGCAGCAGGCATCGCCGGATGGAGGCTGTGCGGCTGCG
GAAAGAGAACCAGATCTACAGTGCCGATGAGAAGAGAGCCCTCGCGTCCTTTAACCAAGAAGAGAGACGAAAGAGAGAGA
ACAAGATTCTGGCCAGTTTCCGAGAGATGGTATACAGAAAGACCAAAGGGAAGGATGACAAA

Alignment

ORF - retro_etel_1882 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.7 %
• Parental protein coverage: 53.47 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SDSSARDSQEEFLENPWKERSKPEEPSDLIGPEAPKTLASQDDKPLNYGHALLPGEGAAMAEYVKAGKRI
          SDSSARDSQEEFLE.PWKERSKPEEPSDLIGPEAPKTLASQDDKPLNYG.ALLPGEGAAMAEYVKAGKRI
Retrocopy SDSSARDSQEEFLETPWKERSKPEEPSDLIGPEAPKTLASQDDKPLNYGYALLPGEGAAMAEYVKAGKRI

Parental  PRRGEIGLTSEEIASFECSGYVMSGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENKILASF
          PRRGEIGLTSEEIASFECSGYVMSGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENKILASF
Retrocopy PRRGEIGLTSEEIASFECSGYVMSGSRHRRMEAVRLRKENQIYSADEKRALASFNQEERRKRENKILASF

Parental  REMVYRKTKGKDDK
          REMVYRKTKGKDDK
Retrocopy REMVYRKTKGKDDK

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_1882 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 15 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000018433	1 retrocopy	retro_cfam_172,
Dasypus novemcinctus	ENSDNOG00000000072	1 retrocopy	retro_dnov_50,
Echinops telfairi	ENSETEG00000001007	1 retrocopy	retro_etel_1882 ,
Felis catus	ENSFCAG00000004392	1 retrocopy	retro_fcat_10,
Homo sapiens	ENSG00000101882	1 retrocopy	retro_hsap_15,
Loxodonta africana	ENSLAFG00000002962	1 retrocopy	retro_lafr_37,
Macaca mulatta	ENSMMUG00000012382	1 retrocopy	retro_mmul_121,
Mus musculus	ENSMUSG00000016409	1 retrocopy	retro_mmus_279,
Nomascus leucogenys	ENSNLEG00000014922	1 retrocopy	retro_nleu_88,
Otolemur garnettii	ENSOGAG00000001004	1 retrocopy	retro_ogar_239,
Pongo abelii	ENSPPYG00000020679	1 retrocopy	retro_pabe_198,
Pan troglodytes	ENSPTRG00000022233	1 retrocopy	retro_ptro_117,
Rattus norvegicus	ENSRNOG00000031169	1 retrocopy	retro_rnor_93,
Sus scrofa	ENSSSCG00000012613	1 retrocopy	retro_sscr_13,
Ictidomys tridecemlineatus	ENSSTOG00000001134	1 retrocopy	retro_itri_73,