RetrogeneDB ID: retro_eeur_141

Retrocopy location

• Organism: Hedgehog (Erinaceus europaeus)
• Coordinates: GeneScaffold_8851:66331..66839(+)
• Located in intron of: ENSEEUG00000010770

Retrocopy information

• Ensembl ID: ENSEEUG00000010872
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: KLK13
• Ensembl ID: ENSEEUG00000008293
• Aliases: None
• Description: kallikrein-related peptidase 13 [Source:HGNC Symbol;Acc:6361]

Sequence

>retro_eeur_141
ATGTGGCCCCTGGCGGTGGTGATCAGCCTCCTGACCGTGACCCTGTCAGGCGGCATCTCTCGGGAGTACCCCAAGATCAT
CAATAACACCAATGGTACCAGCGGGTTGCTGCCAGGTGGCTATACCTGTCAGCCCCACTCTCAGCCCTGGCAGGTAGCCC
TGCTAGTTCAGGGGCGGCTGCTCTGTGGGGGAGTCCTGGTCCACCCCAAATGGGTCCTCACTGATGCACACTGTCTGAAG
GAGGGCTACAGAGTCTACCTGGGCAAGCACGCCCTGGGGCGTGTGGAGGCTGGAGAGGAGGTGAGGGAAGTGGTCCGCTC
TATACCCCACCCGAAATACCAGGTCAGCCCCACCCACCTGAACCATGACCATGACATCATGCTTCTGGAGCTGCAGACTC
CGGTCCAGTTCTCCAGCACATCCACACCATGCTCCTCTCGCACAGAGACTGCCTGCCCCTGGCACCTGCTGCCGGATGTC
AGGCTGGAGCACCACCACCAGCCCCCAG

Alignment

ORF - retro_eeur_141 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.19 %
• Parental protein coverage: 61.15 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MWPLAVVISLLTVTLSGGISREYPKIINSTNGTSGLLPGGYTCQPHSQPWQVALLVQGRLLCGGVLVHPK
          MWPLAVVISLLTVTLSGGISREYPKIIN.TNGTSGLLPGGYTCQPHSQPWQVALLVQGRLLCGGVLVHPK
Retrocopy MWPLAVVISLLTVTLSGGISREYPKIINNTNGTSGLLPGGYTCQPHSQPWQVALLVQGRLLCGGVLVHPK

Parental  WVLTAAHCLKEGYRVYLGKHALGRVEAGEEVREVVRSIPHPKYQVSPTHLNHDHDIMLLELQAPVQFSS-
          WVLT.AHCLKEGYRVYLGKHALGRVEAGEEVREVVRSIPHPKYQVSPTHLNHDHDIMLLELQ.PVQFSS.
Retrocopy WVLTDAHCLKEGYRVYLGKHALGRVEAGEEVREVVRSIPHPKYQVSPTHLNHDHDIMLLELQTPVQFSS<

Parental  HIRAMPLSHRDCLP-PGTCCRVSGWGTTTSPQ
          HI..M.LSHRDCLP.PGTCCR.SGW.TTTSPQ
Retrocopy HIHTMLLSHRDCLP<PGTCCRMSGWSTTTSPQ

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	0.00 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 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_141 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000008293	1 retrocopy	retro_eeur_141 ,
Pteropus vampyrus	ENSPVAG00000010413	1 retrocopy	retro_pvam_1473,