RetrogeneDB ID: retro_etel_1226

Retrocopy location

• Organism: Lesser hedgehog tenrec (Echinops telfairi)
• Coordinates: scaffold_231740:2684..3077(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSETEG00000005137
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: UBE2R2
• Ensembl ID: ENSETEG00000011574
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2R 2 [Source:HGNC Symbol;Acc:19907]

Sequence

>retro_etel_1226
GGGGACATGTGCATCTCCATCCTACATCTCCCCGGTTGACGACCCCCAGAGCGGGAGCTGCCCTCAGAGTGGTGGAACCC
CACCCAGAACATCAGGATCATCCTGCTGAGCGTCATCTCCCTCCTCAAGGAACCCAGCACCTTCTCGCCCGCCAAAGTGG
ACGCCTCAGTGGTGTACCGCCGGTGGAAGGAGAGCAAGGGCACGGACCGCGAGTACACGGACATCATCCGGAAGCAGGTC
CTGGGGACCAAGGTGGATGCGGAGCTGGATGGCGTGAAGGTGCCCACCAAGCTGGCAGGATACTGCGTGAAGACCAGGGC
CCCGGCGCCTGACGATGGCTTGGACCTGTTCTACGAGGCCTACTGTGAGGACGGTGAGACTGAGGAGGGCGAT

Alignment

ORF - retro_etel_1226 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.41 %
• Parental protein coverage: 87.33 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GDVCISILH-PPVDDPQSG-ELPSERWNPTQNVRTILLSVISLLNEPNTFSPANVDASVMFRKWRDSKGK
          GD.CISILH..PVDDPQSG.ELPSE.WNPTQN.R.ILLSVISLL.EP.TFSPA.VDASV..R.W..SKG.
Retrocopy GDMCISILH>SPVDDPQSG<ELPSEWWNPTQNIRIILLSVISLLKEPSTFSPAKVDASVVYRRWKESKGT

Parental  DKEYAEIIRKQVSATKAEAEKDGVKVPTTLAEYCIKTKVPSNDNSSDLLYDDLYDDDIDDEDE
          D.EY..IIRKQV..TK..AE.DGVKVPT.LA.YC.KT..P..D...DL.Y.....D....E..
Retrocopy DREYTDIIRKQVLGTKVDAELDGVKVPTKLAGYCVKTRAPAPDDGLDLFYEAYCEDGETEEGD

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_1226 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 6 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000011574	1 retrocopy	retro_etel_1226 ,
Myotis lucifugus	ENSMLUG00000006793	1 retrocopy	retro_mluc_2175,
Oryctolagus cuniculus	ENSOCUG00000023588	3 retrocopies	retro_ocun_131, retro_ocun_1719, retro_ocun_1793,
Sorex araneus	ENSSARG00000005734	1 retrocopy	retro_sara_528,
Tarsius syrichta	ENSTSYG00000013265	7 retrocopies	retro_tsyr_1118, retro_tsyr_1526, retro_tsyr_1527, retro_tsyr_1819, retro_tsyr_432, retro_tsyr_494, retro_tsyr_830,
Tursiops truncatus	ENSTTRG00000010587	1 retrocopy	retro_ttru_724,