DreEX6046268 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34280437-34283008:-
Coord C1 exon
chr20:34282825-34283008
Coord A exon
chr20:34281172-34281269
Coord C2 exon
chr20:34280437-34280715
Length
98 bp
Sequences
Splice sites
3' ss Seq
CATTTTTATTTTGTTGACAGAAT
3' ss Score
6.19
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
Exon sequences
Seq C1 exon
TTCCTCCTCTGATCCAGGGGAATGGGCCTGCTGCTAAGGAACTGACCACAGTGCTGGACAGCTCAATAAATATCGAGTGTGTAGCTAGTGGTTCTCCACCTCCCCAGCTCAACTGGCTGAAGAATGGTCTGCCGCTTCCAGTATCGTCTCAGATACGCCTGCTGTCTGCTGGCCAAGTCCTGCG
Seq A exon
AATTGCTCGTGCACAGGTATCTGATGGGGGCAGCTATACTTGTGTGGCCTCCAATAGAGCCGGTGTGGACAACAGACACTACACCCTACAGGTATATG
Seq C2 exon
TTCCTCCAAGTTTGGACGGGGCAGGCAGTACAGAAGAAGTAACAGTTGTGAAAGGAAGCACAGCTTCTTTCATCTGCATTGCTGATGGGACGCCCAGTCCAGTCATTATTTGGCTGAGAACTGGTGCATCAGTTTCTAAAGATGCTCATATCTCACTCCTCAACCAAAACAGCACAATGCAGATTGTAAATGTGCTAGTCAACCACACTGGACGCTACACCTGCACTGCACATAATCAAGCTGGAGATGCTAGCCGCCACTTCAGCCTCAAAGTACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'70-73,'70-72,73-73=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence exclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=0.000 C2=0.043
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(61.9=83.9)
A:
PF0767911=I-set=PD(36.9=91.2)
C2:
PF0767911=I-set=WD(100=90.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCGTCTCAGATACGCCTGCT
R:
GATGCACCAGTTCTCAGCCAA
Band lengths:
172-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]