DreEX6046217 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34360395-34364244:-
Coord C1 exon
chr20:34364122-34364244
Coord A exon
chr20:34360595-34360766
Coord C2 exon
chr20:34360395-34360501
Length
172 bp
Sequences
Splice sites
3' ss Seq
TTATAAACTTTTTGCTGCAGGTT
3' ss Score
9.05
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
Exon sequences
Seq C1 exon
GTGGTTTTTGTGTTGACTGGTGACTGTGACGACCGGTCACACATTGGCTATAAAGTATATGAAGAAATTGCCTCGACCAGCTCGGGACAGGTCTTCCATCTGGACAAGAAACAAGTCAATGAG
Seq A exon
GTTTTGAAATGGGTTGAGGAGGCCGTGCAGTCCTCAAAGGTTCACCTGCTCTCAACTGATCACCAAAATGGGCTTGCAAACACCTGGCAGATCCCATTTGACCCTAGTCTGAAGGAAGTGACTGTTGCCTTAAGTGGACCAGCACCGAACATAGAGATACGAAATTCTCAGG
Seq C2 exon
GTAAACTTATCGGAATTAAGGAAGGTCTGTCTGAGCTTCTTCACATCCCAAACTCCGCTAAAGTTCTCAACCTCAAAGATCCTGCCCCAGGAATGTGGACCATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'3-4,'3-3,4-4=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=0.000 C2=0.056
Domain overlap (PFAM):
C1:
PF135191=VWA_2=FE(23.4=100)
A:
PF135191=VWA_2=PD(2.3=6.9)
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:
TGGTTTTTGTGTTGACTGGTGAC
R:
TATGGTCCACATTCCTGGGGC
Band lengths:
226-398
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]