RetrogeneDB ID:

retro_eeur_470

Retrocopy
location
Organism:Hedgehog (Erinaceus europaeus)
Coordinates:scaffold_316590:21460..21810(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DESI2
Ensembl ID:ENSEEUG00000009507
Aliases:None
Description:desumoylating isopeptidase 2 [Source:HGNC Symbol;Acc:24264]


Retrocopy-Parental alignment summary:






>retro_eeur_470
GGTGGCCATCCTTACCCCTTTCTGGAATATTTGAAATTTCCCCTGGAAATGCTTCTGAATTGGGAGAAACATTTAAATTT
AAAGAAGCTGTTGTTTTAGGGAGTCCTGACTTCCTAGAAGATGATATAGAAAAAATTGTAGAAGAACTGGGAAAAGAATA
CAAAGGCAATGCCTATCATTTTGATGCATAAAAACTGCAATCATTTTTTCTTCAGCTTTATCAGAGGATTCTTTGTGGAA
AAGACATTTCCGAGCTGGGAAAATCGCCTGGGCCTACTTCAGTTCCTGCATACCTTTTCTCCCGAGTTTGCTCTGGGAAG
AAGTGACTCACTCTGGCAGCCCTGGAAGCC

ORF - retro_eeur_470 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 81.97 %
Parental protein coverage: 75.5 %
Number of stop codons detected: 1
Number of frameshifts detected 7


Retrocopy - Parental Gene Alignment:

ParentalGGHPYPF-SGISDISPGNASELGETFKF-EAVVLGSTDFLEDDIEKIVEELGKEYKGNAYH-LMHKNCNH
GGHPYPF.SGI..ISPGNASELGETFKF.EAVVLGS.DFLEDDIEKIVEELGKEYKGNAYH.LMHKNCNH
RetrocopyGGHPYPF<SGIFEISPGNASELGETFKFKEAVVLGSPDFLEDDIEKIVEELGKEYKGNAYH>LMHKNCNH
Parental-FSSALSE-ILCGKEI-PRWINRL-AYFSSCIPFLQS-CLPKEWLTPAALQS
.FSSALSE.ILCGK.I.P.W.NRL.AYFSSCIPFL.S.C..K..LT.AAL..
Retrocopy>FSSALSE>ILCGKDI>PSWENRL>AYFSSCIPFLPS>CSGKK*LTLAALEA

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP017611_brain 0 .00 RPM 1 .45 RPM
SRP017611_kidney 0 .00 RPM 2 .81 RPM
SRP017611_liver 0 .00 RPM 0 .80 RPM
Erinaceus europaeus was not studied using ChIP-Seq data.
Erinaceus europaeus was not studied using EST data.
Erinaceus europaeus was not studied using FANTOM5 data.
retro_eeur_470 was not experimentally validated.

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 11 parental genes, and 15 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000000161 retrocopy
Dasypus novemcinctus ENSDNOG000000034843 retrocopies
Erinaceus europaeus ENSEEUG00000009507 2 retrocopies
retro_eeur_394, retro_eeur_470 ,
Homo sapiens ENSG000001216441 retrocopy
Gorilla gorilla ENSGGOG000000097971 retrocopy
Nomascus leucogenys ENSNLEG000000040191 retrocopy
Ochotona princeps ENSOPRG000000153682 retrocopies
Pongo abelii ENSPPYG000000000551 retrocopy
Pan troglodytes ENSPTRG000000021801 retrocopy
Sus scrofa ENSSSCG000000108761 retrocopy
Drosophila melanogaster FBgn00335511 retrocopy



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