DreEX6046273 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34278131-34279644:-
Coord C1 exon
chr20:34279508-34279644
Coord A exon
chr20:34278365-34278506
Coord C2 exon
chr20:34278131-34278275
Length
142 bp
Sequences
Splice sites
3' ss Seq
ATGTCTTTTGCTTTTGTCAGATG
3' ss Score
8.37
5' ss Seq
ATGGTGACC
5' ss Score
2.49
Exon sequences
Seq C1 exon
TTCCACCCAATATTGCTGGAGACAGAGGTGTGCAAGATGTGTCTGTCCTGCAGAACAGACAGGTCACCCTGGAATGTAAATCAGATGCAGTTCCACCTCCAACCCTCACCTGGCTTAAAGACGATGCACCTCTGAAG
Seq A exon
ATGTCTCCACGAGTGCGTGTTTTGTCCAGTGGCCGTTACCTGCAGATCAACAATGCAGTGCTTGGAGATGGTGCTCAGTATTCATGCGTGGCCAGCAATGTTGCTGGAGAAACGAGACGCCACTTCAAGCTTAGTGTCAATG
Seq C2 exon
TTCCTCCCACTATAAAGGATGGTCCTCAGTCTGTTTCGGTTCATATCAATCAGCCGGTTGTTCTAGAGTGTGTTGTGAATGGAGTCCCTGCTCCGCGCATTACCTGGAGGAAGCAAGGCTCCATCCTGGCAGGAAACAACCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'77-78,'77-77,78-78=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=0.109 A=0.062 C2=0.102
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(45.3=84.8)
A:
PF0767911=I-set=PD(52.3=93.8)
C2:
PF0767911=I-set=PU(52.3=93.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGACAGAGGTGTGCAAGA
R:
GAGCCTTGCTTCCTCCAGGTA
Band lengths:
242-384
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]