RetrogeneDB ID: retro_eeur_220

Retrocopy location

• Organism: Hedgehog (Erinaceus europaeus)
• Coordinates: scaffold_212287:2012..2225(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENY2
• Ensembl ID: ENSEEUG00000012383
• Aliases: None
• Description: enhancer of yellow 2 homolog (Drosophila) [Source:HGNC Symbol;Acc:24449]

Sequence

>retro_eeur_220
TTGCTGAGAGCTCAATTAATTAAATATGGCTGGAAGAATCGGTTGAAACCACATGGTAAAGAGGTAATTAAAGAAAAAGA
AAGTATAGGCTATGTCAATGTTGATAACTTAGTGGCTGAATTAACACCAAAATCCGTATTTCTGGTACCTGACAGTGTAA
AGAATAATATTCTCCGGAGAATAAATATACTCCTTGCTCAGCCCGCCAGCCTT

Alignment

ORF - retro_eeur_220 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.38 %
• Parental protein coverage: 95.89 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLRAKLIECGWKDQLKAHCKEVIKEK-GLEHVTVDDLVAEITPKGRALVPDSVKKELLQRIRTFLAQHAS
          LLRA.LI..GWK..LK.H.KEVIKEK.....V.VD.LVAE.TPK...LVPDSVK...L.RI...LAQ.AS
Retrocopy LLRAQLIKYGWKNRLKPHGKEVIKEKESIGYVNVDNLVAELTPKSVFLVPDSVKNNILRRINILLAQPAS

Parental  L
          L
Retrocopy L

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP017611_brain	0.00 RPM	14.66 RPM
SRP017611_kidney	0.00 RPM	13.69 RPM
SRP017611_liver	0.00 RPM	10.61 RPM

ChIP-Seq

Erinaceus europaeus was not studied using ChIP-Seq data.

EST

Erinaceus europaeus was not studied using EST data.

TSS

Erinaceus europaeus was not studied using FANTOM5 data.

Lab

retro_eeur_220 was not experimentally validated.

Homology

Retrocopy orthology:

Erinaceus europaeus 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 7 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003039	1 retrocopy	retro_acar_1,
Dasypus novemcinctus	ENSDNOG00000007377	1 retrocopy	retro_dnov_25,
Erinaceus europaeus	ENSEEUG00000012383	3 retrocopies	retro_eeur_125, retro_eeur_220 , retro_eeur_512,
Myotis lucifugus	ENSMLUG00000027585	1 retrocopy	retro_mluc_357,
Sorex araneus	ENSSARG00000009845	1 retrocopy	retro_sara_561,
Sarcophilus harrisii	ENSSHAG00000001787	4 retrocopies	retro_shar_454, retro_shar_675, retro_shar_815, retro_shar_816,
Tursiops truncatus	ENSTTRG00000001742	3 retrocopies	retro_ttru_46, retro_ttru_845, retro_ttru_997,