RetrogeneDB ID: retro_eeur_547

Retrocopy location

• Organism: Hedgehog (Erinaceus europaeus)
• Coordinates: scaffold_342375:41401..41804(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSEEUG00000007311
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: NAA50
• Ensembl ID: ENSEEUG00000014852
• Aliases: None
• Description: N(alpha)-acetyltransferase 50, NatE catalytic subunit [Source:HGNC Symbol;Acc:29533]

Sequence

>retro_eeur_547
AAGTTCTACAAGGATGTGCAGGAGGTTGGTGAACTAGCAAAACTTGCCTACTGCAATGATATTGCAGTAGGTGCCATATG
CTGTTGGGTGGATCATTCACAGAATCAAAAGAGACTTTACATCATGACTTTAGGGTGTTTGGCACCATTACCAGAGACTA
GGGATAGGAACTAAAATGCTAAATCATGTCTTAAACATCTGTGAAAAAGACGGCACTTTTGACATTTATCTGCATGTCCA
GATCAGCAATGAGTCAGCAATTGACTTCTACAGGAAGTTTGGCTGTAAGATAATTGAGACAAAGAACTACTATAAGAGAA
TAGAGCCTGAAGATGCTCACATGCTGCAGAAAAACCTCAAAGACCCTTCTGGCCAGAAAGCAGATGTGCAAAAGACAGAT
AAC

Alignment

ORF - retro_eeur_547 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.78 %
• Parental protein coverage: 81.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  KFYKDVLEVGELAKLAYFNDIAVGAVCCRVDHSQNQKRLYIMTLGCLAP-YRRLGIGTKMLNHVLNICEK
          KFYKDV.EVGELAKLAY.NDIAVGA.CC.VDHSQNQKRLYIMTLGCLAP.Y.RLGIGTKMLNHVLNICEK
Retrocopy KFYKDVQEVGELAKLAYCNDIAVGAICCWVDHSQNQKRLYIMTLGCLAP>YQRLGIGTKMLNHVLNICEK

Parental  DGTFDNIYLHVQISNESAIDFYRKFGFEIIETKKNYYKRIEPADAHVLQKNLKVPSGQNADVQKTDN
          DGTFD.IYLHVQISNESAIDFYRKFG..IIET.KNYYKRIEP.DAH.LQKNLK.PSGQ.ADVQKTDN
Retrocopy DGTFD-IYLHVQISNESAIDFYRKFGCKIIET-KNYYKRIEPEDAHMLQKNLKDPSGQKADVQKTDN

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	24.01 RPM
SRP017611_kidney	0.00 RPM	51.01 RPM
SRP017611_liver	0.16 RPM	26.53 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_547 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000014852	1 retrocopy	retro_eeur_547 ,
Procavia capensis	ENSPCAG00000009780	2 retrocopies	retro_pcap_205, retro_pcap_459,
Pan troglodytes	ENSPTRG00000015233	2 retrocopies	retro_ptro_3015, retro_ptro_3031,
Ictidomys tridecemlineatus	ENSSTOG00000009438	1 retrocopy	retro_itri_1703,