RetrogeneDB ID:

retro_eeur_236

Retrocopy
location
Organism:Hedgehog (Erinaceus europaeus)
Coordinates:scaffold_217828:3559..3940(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSEEUG00000008947
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_eeur_236
GAAAACTTAGCCCGGTTCTTCCTGCGCCTGTCCAGCGAAGAGAGAGCAAATGCTGAGAATCTAATTCAGTTACAAAAACA
GCGCGGAGCACACACAAATCTCCTTGAGATCCAAGTGTGTGAGGACTGGGAGAGTGGACCAAAGGCCGTGGATTTTGCTC
TTGGCCTAGAGAAGCATGTGAACCAGAACCTATCCAATCTGCACCAACTGGCCACCAACACAAATGATATCCAACTGTGC
GACTTCCTGGAAAGTCACTATCTGCATGATGAAGTCAAGTCCCCCCAACAGTCGGGTGACCCTTCCACCTGCCAGAGAAG
GTTCCGGGCTCTAGAACAGGACCTGTCTGAGTACTTCTTTCAATACCTTACCCTGGATGAC

ORF - retro_eeur_236 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 50.39 %
Parental protein coverage: 54.66 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKNFAKYFLHQSHEEREHAEKLMKLQNQRGGRIYLQDIKKPERDDWENGLNAMECALHLEKTVNQSLLELH
.N.A..FL..S.EER..AE.L..LQ.QRG....L..I...E..DWE.G..A...AL.LEK.VNQ.L..LH
RetrocopyENLARFFLRLSSEERANAENLIQLQKQRGAHTNLLEIQVCE--DWESGPKAVDFALGLEKHVNQNLSNLH
ParentalKLATEKNDPHLCDFLETHYLDEQVKSIKELGDHVTNLRRMGAPQSGLAEYLFDKHTLGD
.LAT..ND..LCDFLE.HYL...VKS....GD..T..RR..A....L.EY.F...TL.D
RetrocopyQLATNTNDIQLCDFLESHYLHDEVKSPQQSGDPSTCQRRFRALEQDLSEYFFQYLTLDD

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 746 .42 RPM
SRP017611_kidney 0 .00 RPM 1248 .45 RPM
SRP017611_liver 0 .00 RPM 1637 .98 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_236 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 3 parental genes, and 27 retrocopies.

Species Parental gene accession Retrocopies number
Erinaceus europaeus ENSEEUG00000008947 8 retrocopies
Latimeria chalumnae ENSLACG000000174261 retrocopy
Tursiops truncatus ENSTTRG0000001040518 retrocopies



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