DreEX6046288 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34268309-34268977:-
Coord C1 exon
chr20:34268807-34268977
Coord A exon
chr20:34268551-34268721
Coord C2 exon
chr20:34268309-34268479
Length
171 bp
Sequences
Splice sites
3' ss Seq
TCTCTTCTCTTCTTCGACAGTGG
3' ss Score
8.5
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
Exon sequences
Seq C1 exon
TGGCGGGAAACTGGGGTGCCTGGTTGCCTTGGAGCCCTTGTAGTGAAACTTGTGGCAAAGGGATGCAGACAAGACTCAGACTCTGCAACAATCCTCCACCTTCATTTGAAGGGCCGTCGTGTGAAGGACCAGACACACAGACACAAGTGTGCAATGAAAGGAATTGCCCTG
Seq A exon
TGGATGGTAAGTGGTCATCCTGGGTAAGTTGGGGGGCTTGTAGTGTTTCTTGTGGAGGCGGTACAAGGCAAAGGACACGCATCTGTGCAAATCCCACACCCCAACATGGTGGACGGCAGTGTGAGGGAAATGACATCCACATTGACTTCTGCAACAATGAACCCTGCCCCA
Seq C2 exon
TTCATGGAAACTGGGGCCCATGGAACAGCTGGGGCAGTTGTAGCAGAACCTGCAATGGTGGTCAAATGAGACGGTACAGAACATGTGACAATCCTCGACCAGCGAATGGAGGCAGAGCGTGTACTGGATCAGACTCACAAATCCAGAAGTGTAACACAGCCAACTGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'102-100,'102-99,103-100=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=0.034 C2=0.052
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=87.9)
A:
PF0009014=TSP_1=WD(100=87.9)
C2:
PF0009014=TSP_1=WD(100=87.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCCTTGGAGCCCTTGTAG
R:
GCTGGTCGAGGATTGTCACAT
Band lengths:
252-423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]