RetrogeneDB ID: retro_etel_233

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_3944:202336..202911(-)
• 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_233
AGGGACGCAGAGCCGGAGGATCCCATGTTCCTGATGGACCCCTTTGCCATTCACCGCCAGCATATGAGCCGGATGTTGTT
GGGGGGCTTTGGATATAAACCCTTCCTCAGCATCACAGATGGCAACATGCCAGGGACCAGGCCTGCCAGCCGCAGGATGC
AGGCTGGGGCTGTCTCCCCCTTCAGGATGCTGGGAATGTCCGGTGGCTTCATGGACATGTTTGGGATGATGAATGACATG
ATTGGGAACATGGAACATATGACCGCTGCAGGCAAGTGCCAGACCTTTTCGTCCTCCACGGTCATCTCCTACTCCAATAC
CGGGGTTGGTGCTCCCAAGGTCTACCAAGAGACGTCAGAGATGAGCTCGGCACCAGGCGGGATCCAGGAGACATGGAGGA
TTGTCCGGGACTCGGAGAGTGGCCTGAAGCAGATGTCCATTGGGCACCACATCCGAGACAGGGCTCACATTCCCAATGCT
CCCGAAACCAATGCACAGGGGACCAGGAGGAGAGGCAGGACTACCTCAGCCTGGATGAGAGTGAGGCCGCAGCCTTTGAT
GGCAAGTGGCTGAGG

Alignment

ORF - retro_etel_233 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.12 %
• Parental protein coverage: 78.69 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RDAEPEDPMFLMDPFAIHRQHMSRMLSGGFGYSPFLSITDGNMPGTRPASRRMQAGAVSPFEMLGMSGGF
          RDAEPEDPMFLMDPFAIHRQHMSRML.GGFGY.PFLSITDGNMPGTRPASRRMQAGAVSPF.MLGMSGGF
Retrocopy RDAEPEDPMFLMDPFAIHRQHMSRMLLGGFGYKPFLSITDGNMPGTRPASRRMQAGAVSPFRMLGMSGGF

Parental  MDMFGMMNDMIGNMEHMTAAGNCQTFSSSTVISYSNTGDGAPKVYQETSEMRSAPGGIRETRRTVRDSDS
          MDMFGMMNDMIGNMEHMTAAG.CQTFSSSTVISYSNTG.GAPKVYQETSEM.SAPGGI.ET.R.VRDS.S
Retrocopy MDMFGMMNDMIGNMEHMTAAGKCQTFSSSTVISYSNTGVGAPKVYQETSEMSSAPGGIQETWRIVRDSES

Parental  GLEQMSIGHHIRDRAHI-LQRSRNHRTGDQEERQDYINLDESEAAAFDDEWRR
          GL.QMSIGHHIRDRAHI..Q.SRN..TGDQEERQDY..LDESEAAAFD..W.R
Retrocopy GLKQMSIGHHIRDRAHI<SQCSRNQCTGDQEERQDYLSLDESEAAAFDGKWLR

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_233 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,