RetrogeneDB ID: retro_eeur_364

Retrocopy location

• Organism: Hedgehog (Erinaceus europaeus)
• Coordinates: scaffold_270149:15025..15531(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AEN
• Ensembl ID: ENSEEUG00000007015
• Aliases: None
• Description: apoptosis enhancing nuclease [Source:HGNC Symbol;Acc:25722]

Sequence

>retro_eeur_364
CCAAGTAAGATGATAGCAATCGACTGTGAGATGGTGGGCACAGGACTCAAAGGCCATGTCAGCGCCTTGGTGAGATGTAG
TATTGTCAACTATGATGGAGATGTGCTTTATGATGAGTACATCCTGCCCCTGTGCCCCATCGTGTACTACCGCACCAGGT
GGCGTGGCATCTGGAAACAGCACATGGTGAACACCACACCATTTAAGATTCCTTAGAGCTAGGTCTTGAAGATACTCATG
GAGAAGATAGTGGTAGACCATGCCATCCACAACGATTTCAAAGTCCTTTGGTACTTCCATCCCAAGTCCCTCACCCGTGA
CACCTCTCACACCCCACCCCCAACCGTAAGGCTGACTGCCCAGAAAACGCCACCATGTCTTTGAAGCAACTCACCAAGAA
GCTGTTGAGCAGGGACATTCAGGTTGGGAAAAGAGGACACTCCTCAGTGGAAGACGCTCAGGCCACCATAGAACTGTACA
AGTTGGTTGAAGTTGAGTGGGAACAG

Alignment

ORF - retro_eeur_364 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.94 %
• Parental protein coverage: 61.23 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PSKCVALDCEMVGTGPRGRVSELARCSVVSYHGDVLYDKYVQPERPISDYRTRWSGVTRQHMLKAIPFQV
          PSK..A.DCEMVGTG..G.VS.L.RCS.V.Y.GDVLYD.Y..P..PI..YRTRW.G...QHM....PF..
Retrocopy PSKMIAIDCEMVGTGLKGHVSALVRCSIVNYDGDVLYDEYILPLCPIVYYRTRWRGIWKQHMVNTTPFKI

Parental  AQKEILRLLKGKVVVGHALHNDFQALKYVHPRSWTRDTTCV-PSLLGQPGLPARSRVSLKDLALQLLHKK
          .....L..L..K.VV.HA.HNDF..L.Y.HP.S.TRDT....P........P.....SLK.L...LL...
Retrocopy P*S*VLKILMEKIVVDHAIHNDFKVLWYFHPKSLTRDTSHT<PTPNRKADCPENATMSLKQLTKKLLSRD

Parental  IQVGQHGHSSVEDAATAMELYRLVEARWEE
          IQVG..GHSSVEDA....ELY.LVE..WE.
Retrocopy IQVGKRGHSSVEDAQATIELYKLVEVEWEQ

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	1.29 RPM	2.09 RPM
SRP017611_kidney	1.50 RPM	3.19 RPM
SRP017611_liver	1.13 RPM	1.77 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_364 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.

---

Parental genes homology:

Parental genes homology involve 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000011521	1 retrocopy	retro_cfam_2183,
Erinaceus europaeus	ENSEEUG00000007015	1 retrocopy	retro_eeur_364 ,
Microcebus murinus	ENSMICG00000015849	1 retrocopy	retro_mmur_776,
Tursiops truncatus	ENSTTRG00000014668	1 retrocopy	retro_ttru_1742,