DreEX6046222 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34332304-34351225:-
Coord C1 exon
chr20:34351104-34351225
Coord A exon
chr20:34346752-34347021
Coord C2 exon
chr20:34332304-34332445
Length
270 bp
Sequences
Splice sites
3' ss Seq
ATTTTTGTCTGTTTGTGCAGAGC
3' ss Score
7.99
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
Exon sequences
Seq C1 exon
GGAGTCTACTAATGCATCATGGCCAATTGCTCAAGTGACCCTGAAGGATGAAGGCTTTTATGAGTGCATCGCCATCAGCAGTGCTGGAACAGGACGGGCTCAGACCTTCCTTGACGTTTCTG
Seq A exon
AGCCTCCTCCTGCTATAACAGTGCCCTTCAATGCGACAGCATCTCCTGGTGCAAATGTCATTCTGACATGTCTGGTCACCAGTACGGTGCGCTTTAACCTGACTTGGCAGCGAGGGGACGTAGATGCCAGATTGGACCATCGCATACGAGTCACTACTAACCTGTCCTTGGAAATCCAGAGAGTGACTCCCGATGATGTTGGTTGGTACACATGTATAGCAGCCAATGAGGGCGGAGTCTCTGCTGCTCGTGTCTACCTGAATGTGCAAG
Seq C2 exon
AACCACCAGTGGTGACGGTTGACCCGCGGAACCAGACGTTCCAGACTGGTCAGGAAATTTGGATCAGGTGTTCAGCTAAAGGCTACCCCTCACCCATGGTCGTGTGGACTCACAATGATATGTTCATTATGGGTTCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'9-10,'9-9,10-10=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=0.033 C2=0.083
Domain overlap (PFAM):
C1:
NO
A:
PF0767911=I-set=WD(100=95.6)
C2:
PF0767911=I-set=PU(52.3=93.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGTCTACTAATGCATCATGGCC
R:
CTGCTGGAACCCATAATGAACA
Band lengths:
264-534
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]