DreEX0037760 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34256454-34260672:-
Coord C1 exon
chr20:34260544-34260672
Coord A exon
chr20:34258275-34258637
Coord C2 exon
chr20:34256454-34256573
Length
363 bp
Sequences
Splice sites
3' ss Seq
TGGTCTTGCTGTGAGAGCAGATA
3' ss Score
-3.33
5' ss Seq
TAGGTAATT
5' ss Score
7.27
Exon sequences
Seq C1 exon
ACATTGATGAGTGCCATGACGGCACACATCAGTGCAGGTATAATCAGATCTGTGAAAACACCAGAGGTAGTTACCACTGCACCTGTCCGAGAGGGTACCGTTCTCAGGGTGTGGGACGTCCCTGCCTTG
Seq A exon
ATATAAACGAGTGTGAGCTGGTACCGGTGCCCTGTGCCTATCAGTGCGTGAACAGCCCTGGCAGCTACAAGTGCCTGTGCCCACCGGGGCTCCACCTGTTGGGCGATGGCAAGTCCTGTGCTGGACTAGAGCGCTTGCCCAGCTATGAGACTTTCTCATATGGGTACAGAACATCCCAGTCCTCCTCTGATCGGAGCTCCTACCTGCAGCGATACCATAGCCTGACATCCCAGAGTTACCACTCATATGTACCCAATGGGGGGCGTCATGTGGCCAACAGACCCAACAGTGCCCCTTCACGCAATCGTAGGAGTACTTATATCTGTCCTCATGGTTTTAAGACCAAAAATGGCCATTGCTTAG
Seq C2 exon
ATATTAATGAGTGTGAACAGAGGGATACATGTCAGCACGAGTGTATGAACACTCCAGGCAGCCATAGGTGTTTGTGTCCCAGCGGCTATCGGCTTATGACCAACGGAAAAACCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.123 C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=95.5),PF0764510=EGF_CA=PU(0.1=0.0)
A:
PF0764510=EGF_CA=WD(100=32.8)
C2:
PF126622=cEGF=PU(83.3=48.8)
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATTGATGAGTGCCATGACGG
R:
TTGGCAGGTTTTTCCGTTGGT
Band lengths:
248-611
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]