DreEX6046244 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34302645-34303275:-
Coord C1 exon
chr20:34303174-34303275
Coord A exon
chr20:34302881-34303057
Coord C2 exon
chr20:34302645-34302796
Length
177 bp
Sequences
Splice sites
3' ss Seq
TTAGCCTATCTCTGCTGTAGCTG
3' ss Score
6.78
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
Exon sequences
Seq C1 exon
AACCTCCAAGTATTCAGTATGCTGGAGAGATGCTCAATGAAACCATCCTTGCTGGTTTTCAAATTCAGCTGAAGTGTAAAGCAACAGGAAGTCCATTGCCGG
Seq A exon
CTGTGACGTGGTATAAAGATGGACGCCCATTAACAAGTGCTGCAGGGGTTAATATTCTGAGCAGAGGTCATGTACTGGAGATCGACCGTGCGCAGGTGTCAGATGCAGGATTCTACAAGTGTGTGGCCATCAATGTGGCCGGCAGCACTGAGCTCACATACAGTCTACAGGTGTATG
Seq C2 exon
TTCCTCCCACTATCTCCAGTAAAGGAGGAATGGTAACAGTGGTGGTGAATGATCCAGTCAGGTTAGAGTGTGAAGCCTCTGGAGTTCCTGTGCCCAGCCTCACCTGGCTAAAAGAGGGCAGTCCTGTCTCCAGCTTCTCAGATGGCATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'37-40,'37-39,38-40=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(31.0=74.3)
A:
PF0767911=I-set=PD(67.9=95.0)
C2:
PF0767911=I-set=PU(53.9=94.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTCCAAGTATTCAGTATGCTGG
R:
TGCCATCTGAGAAGCTGGAGA
Band lengths:
248-425
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]