DreEX6046232 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34316574-34319022:-
Coord C1 exon
chr20:34318895-34319022
Coord A exon
chr20:34316758-34317024
Coord C2 exon
chr20:34316574-34316669
Length
267 bp
Sequences
Splice sites
3' ss Seq
CCTTTCTCTTTTTTTTGCAGTTC
3' ss Score
11.21
5' ss Seq
AGGGTTAGA
5' ss Score
1.78
Exon sequences
Seq C1 exon
ACACATTCAACTGCCATCAGGCTCCATGAGAATCACAGACACTCGTGTGACAGACAGTGGCATGTACCTCTGTGTGGCCACAAACATAGCTGGAAACTTCTCTCAGACAGTCAAACTCAGTGTTCTGG
Seq A exon
TTCCTCCCAGCATCAGTGCAGGTCCCCGAGCCATGAAAGTGCAGATCGGTCACGCCATAGACCTGCCCTGTGTCACACAGGGAGTCCCAGAGCCCTCGGTGTCCTGGCTAAAGGATGGTACTGTTCTGCAGGACGGGTCTCGGTACAGGATCTCAGATGGAGCTCTGACTCTAAACCAGGTGGCGCTTACAGATGAAGGCATCTATGTCTGCAGGGCCGTCAACATTGCTGGAAAAGAAGAAACTGCTATTCAACTACATGTGCAGG
Seq C2 exon
TCCCTCCTGTCGTAGAGGTTTCTGAGCCCCCTTTCAACAGCCCCTTACAGGAGAGAGTGGCTAACCAGCAGATCGCCTTCCCCTGTCCTGCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'22-24,'22-23,23-24=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.091 A=0.000 C2=0.242
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(47.7=93.2)
A:
PF0767911=I-set=WD(100=95.6)
C2:
PF0767911=I-set=PU(26.4=69.7)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACATTCAACTGCCATCAGG
R:
CTTTGGCAGGACAGGGGAAG
Band lengths:
224-491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]