DreEX0037761 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34266986-34268721:-
Coord C1 exon
chr20:34268551-34268721
Coord A exon
chr20:34268309-34268479
Coord C2 exon
chr20:34266986-34267156
Length
171 bp
Sequences
Splice sites
3' ss Seq
CAAATGATCTCTCTTCATAGTTC
3' ss Score
7.07
5' ss Seq
CTGGTAAAG
5' ss Score
5.75
Exon sequences
Seq C1 exon
TGGATGGTAAGTGGTCATCCTGGGTAAGTTGGGGGGCTTGTAGTGTTTCTTGTGGAGGCGGTACAAGGCAAAGGACACGCATCTGTGCAAATCCCACACCCCAACATGGTGGACGGCAGTGTGAGGGAAATGACATCCACATTGACTTCTGCAACAATGAACCCTGCCCCA
Seq A exon
TTCATGGAAACTGGGGCCCATGGAACAGCTGGGGCAGTTGTAGCAGAACCTGCAATGGTGGTCAAATGAGACGGTACAGAACATGTGACAATCCTCGACCAGCGAATGGAGGCAGAGCGTGTACTGGATCAGACTCACAAATCCAGAAGTGTAACACAGCCAACTGCCCTG
Seq C2 exon
TTGATGGCAAGTGGAGTTCATGGGAGTCCTGGGGTGAATGTTCAGCATCTTGTGGAGGTGGAGAACGGACACGTGTCAGACTCTGCAACAGTCCATCGCCTAGCAACAGTGGTCGCCCCTGCCCAGGAGACTCCACCCAGTTGTCAAGGTGTAACTTACAGCCATGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=0.052 C2=0.086
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),PF074747=G2F=PU(0.5=1.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCTGTGCAAATCCCACACCC
R:
CACCTTGACAACTGGGTGGAG
Band lengths:
242-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]