DreEX6046297 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34260544-34261615:-
Coord C1 exon
chr20:34261502-34261615
Coord A exon
chr20:34261291-34261416
Coord C2 exon
chr20:34260544-34260672
Length
126 bp
Sequences
Splice sites
3' ss Seq
TGCTGCTTCTTTCTCCTCAGACA
3' ss Score
10.12
5' ss Seq
TAGGTTTGT
5' ss Score
4.07
Exon sequences
Seq C1 exon
ATGTAAACGAGTGTCAGGAATCGAACCCCTGCCATCAGCACTGTCTAAACACCATTGGCAGCTTCCGCTGTGCTTGTGAGCCGGGGTACCAACTCAGGAATCGGCGCTGTATTG
Seq A exon
ACATAAATGAATGCAAACAGAGAGTGTGTCGCTCAGATCAGCAGTGTAAAAACACACGTGGTGGATACACTTGCATTGACCTCTGCCCTACTGGCATGACTAAAGGAGGCAATGGCACATGCATAG
Seq C2 exon
ACATTGATGAGTGCCATGACGGCACACATCAGTGCAGGTATAATCAGATCTGTGAAAACACCAGAGGTAGTTACCACTGCACCTGTCCGAGAGGGTACCGTTCTCAGGGTGTGGGACGTCCCTGCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'114-112,'114-110,115-112=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:
PF0764510=EGF_CA=WD(100=94.9),PF0764510=EGF_CA=PU(0.1=0.0)
A:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
C2:
PF0764510=EGF_CA=WD(100=95.5),PF0764510=EGF_CA=PU(0.1=0.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTAAACGAGTGTCAGGAATCGA
R:
GACGTCCCACACCCTGAGAA
Band lengths:
234-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]