DreEX6046218 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34357304-34360766:-
Coord C1 exon
chr20:34360595-34360766
Coord A exon
chr20:34360395-34360501
Coord C2 exon
chr20:34357304-34357424
Length
107 bp
Sequences
Splice sites
3' ss Seq
TGTACTTCTTGTACTCATAGGTA
3' ss Score
8.35
5' ss Seq
AAGGTGATG
5' ss Score
5.22
Exon sequences
Seq C1 exon
GTTTTGAAATGGGTTGAGGAGGCCGTGCAGTCCTCAAAGGTTCACCTGCTCTCAACTGATCACCAAAATGGGCTTGCAAACACCTGGCAGATCCCATTTGACCCTAGTCTGAAGGAAGTGACTGTTGCCTTAAGTGGACCAGCACCGAACATAGAGATACGAAATTCTCAGG
Seq A exon
GTAAACTTATCGGAATTAAGGAAGGTCTGTCTGAGCTTCTTCACATCCCAAACTCCGCTAAAGTTCTCAACCTCAAAGATCCTGCCCCAGGAATGTGGACCATAAAG
Seq C2 exon
ACGTCCAGTGAGGGCAGACATTCGGTCCGCATATCAGGGCTCAGCACCATCGATTTCCGAGCTGGCTTTTCTCGAAGACAAACGTTGGACTTTAAAATGACATCCAGCCGGCCAGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'4-5,'4-4,5-5=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.056 C2=0.024
Domain overlap (PFAM):
C1:
PF135191=VWA_2=PD(2.3=6.9)
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGAAATGGGTTGAGGAGGCC
R:
CGAGAAAAGCCAGCTCGGAAA
Band lengths:
243-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]