RetrogeneDB ID: retro_etel_373

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: GeneScaffold_629:33007..33537(-)
• Located in intron of: ENSETEG00000008463

Retrocopy information

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

Parental gene information

• Parental gene symbol: GMPR2
• Ensembl ID: ENSETEG00000018395
• Aliases: None
• Description: guanosine monophosphate reductase 2 [Source:HGNC Symbol;Acc:4377]

Sequence

>retro_etel_373
TCTCGGGCTGACATCATCAAAGTGGGCATCGGGCCAGGTTCTGTGTGTACCACCCGGAAGAAAACAGGAGTGGGGTATCC
GCAGCTCAGTGCAGTGATGGAGTGTGCCGATGCTGCTCATGGCCTCAAAGGCCACATCATTTCAGATGGCGGCTGCAGCT
GTCCTGGAAATGTGGCCAAGGCTTTTGGGGCCGGGGCTGACTTTGTGATGCTGGGCGGCATGCTGGCAGGGCACACCGAG
TCAGGTGGCGAGCTCATCGAGAGGAATGGCAAGAAATACAAGCTTTTCTATGGAATGAGTTCTGAACTGGCCATGAAGAA
GTACGCAGGGGGTGTGGCCGAATACAGGGCCTCAGAGGGCAAGACAGTGGAGGTCCCCTTTAAAGGGGAGTGGAGTATAC
CGTCCGAGACATCCTTGGAGGAGTCCGCTCGACCTGTACCTATGTGGGAGCAGCTAAGCTGAAGGAGTTGAGCCGGAGAA
CTACCTTCATCCGCGTCACCCAGCAGGTGAATCCAATCTTCAGTGAAGAG

Alignment

ORF - retro_etel_373 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.75 %
• Parental protein coverage: 51.01 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SGADIIKVGIGPGSVCTTRKKTGVGYPQLSAVMECADAAHGLKGHIISDGGCSCPGDVAKAFGAGADFVM
          S.ADIIKVGIGPGSVCTTRKKTGVGYPQLSAVMECADAAHGLKGHIISDGGCSCPG.VAKAFGAGADFVM
Retrocopy SRADIIKVGIGPGSVCTTRKKTGVGYPQLSAVMECADAAHGLKGHIISDGGCSCPGNVAKAFGAGADFVM

Parental  LGGMLAGHTESGGELIERNGKKYKLFYGMSSELAMKKYAGGVAEYRASEGKTVEVPFKGD-VEYTVRDIL
          LGGMLAGHTESGGELIERNGKKYKLFYGMSSELAMKKYAGGVAEYRASEGKTVEVPFKG..VEYTVRDIL
Retrocopy LGGMLAGHTESGGELIERNGKKYKLFYGMSSELAMKKYAGGVAEYRASEGKTVEVPFKGE<VEYTVRDIL

Parental  GGVRSTCTYVGAAKLKELSRRTTFIRVTQQVNPIFSEE
          GGVRSTCTYVGAAKLKELSRRTTFIRVTQQVNPIFSEE
Retrocopy GGVRSTCTYVGAAKLKELSRRTTFIRVTQQVNPIFSEE

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_373 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001231	1 retrocopy	retro_chof_1628,
Echinops telfairi	ENSETEG00000018395	1 retrocopy	retro_etel_373 ,
Microcebus murinus	ENSMICG00000001736	1 retrocopy	retro_mmur_1510,
Ictidomys tridecemlineatus	ENSSTOG00000002336	1 retrocopy	retro_itri_1331,