RetrogeneDB ID: retro_etel_1236

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_232853:6097..6520(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSETEG00000014471
• Aliases: None
• Description: None

Sequence

>retro_etel_1236
TCTATCTCCCCCTTTGGGATGCTGGAAATGTCCAGTGGCTTCATGGACGTGTTTGGGATGATGAATGACATGATTGGGAA
CATGGAATATATGACCACTGCAGGCAACTGCCAGGCCTTTTTTTCCTCTGCAGTCATCTCCTACTCCAATACCGGGGATG
GTGCTCCCAAGGTCTACCAAGAGACATCAGAGATGTGCTTGGCACCAAGCGGGATCCGGGAGATGCGGAGGACTGTCCAG
GACTCGGAGAGTGGCCTGGAGCAGATGTCCAGTGGGCACCGCATCCAAGACAGGGCTCACATTCTCCAGCGCTCCTGAAA
CCACCGCAGAGGGGACCAGGAGGAATGACAAAACTACATCAACCTGGATGAGAGTGAGGCCGCAGCCTTCTAGTATGAGT
GGCAGAGAGAAGCCTCCCGATTC

Alignment

ORF - retro_etel_1236 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.14 %
• Parental protein coverage: 57.79 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AVSPFEMLGMSGGFMDMFGMMNDMIGNMEHMTAAGNCQTFSSSTVISYSNTGDGAPKVYQETSEMRSAPG
          ..SPF.ML.MS.GFMD.FGMMNDMIGNME.MT.AGNCQ.F.SS.VISYSNTGDGAPKVYQETSEM..AP.
Retrocopy SISPFGMLEMSSGFMDVFGMMNDMIGNMEYMTTAGNCQAFFSSAVISYSNTGDGAPKVYQETSEMCLAPS

Parental  GIRETRRTVRDSDSGLEQMSIGHHIRDRAHILQRSRNHRTGDQEERQDYINLDESEAAAFDDEWRRETSR
          GIRE.RRTV.DS.SGLEQMS.GH.I.DRAHILQRS.NHR.GDQEE.Q.YINLDESEAAAF..EW.RE.SR
Retrocopy GIREMRRTVQDSESGLEQMSSGHRIQDRAHILQRS*NHRRGDQEE*QNYINLDESEAAAF*YEWQREASR

Parental  F
          F
Retrocopy F

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_1236 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000000758	2 retrocopies	retro_dnov_1602, retro_dnov_649,
Echinops telfairi	ENSETEG00000014471	2 retrocopies	retro_etel_1236 , retro_etel_233,
Microcebus murinus	ENSMICG00000010652	1 retrocopy	retro_mmur_449,
Monodelphis domestica	ENSMODG00000018113	1 retrocopy	retro_mdom_324,
Mus musculus	ENSMUSG00000030120	1 retrocopy	retro_mmus_1090,
Otolemur garnettii	ENSOGAG00000005976	1 retrocopy	retro_ogar_232,
Procavia capensis	ENSPCAG00000001026	1 retrocopy	retro_pcap_326,
Ictidomys tridecemlineatus	ENSSTOG00000009908	1 retrocopy	retro_itri_1707,