DreEX6046274 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34277921-34278506:-
Coord C1 exon
chr20:34278365-34278506
Coord A exon
chr20:34278131-34278275
Coord C2 exon
chr20:34277921-34278048
Length
145 bp
Sequences
Splice sites
3' ss Seq
TTATTGCATTTTTTCTGCAGTTC
3' ss Score
7.79
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
Exon sequences
Seq C1 exon
ATGTCTCCACGAGTGCGTGTTTTGTCCAGTGGCCGTTACCTGCAGATCAACAATGCAGTGCTTGGAGATGGTGCTCAGTATTCATGCGTGGCCAGCAATGTTGCTGGAGAAACGAGACGCCACTTCAAGCTTAGTGTCAATG
Seq A exon
TTCCTCCCACTATAAAGGATGGTCCTCAGTCTGTTTCGGTTCATATCAATCAGCCGGTTGTTCTAGAGTGTGTTGTGAATGGAGTCCCTGCTCCGCGCATTACCTGGAGGAAGCAAGGCTCCATCCTGGCAGGAAACAACCCCAG
Seq C2 exon
GTATAAGTTTGGTGAGGATGGTTCACTCCGCATCCTCTCAGCGCAGGTGACTGATACAGGCCGCTACCTTTGCATGGCCACCAACCAGGCGGGAACAGAGCGCAAGAGAGTAGATCTACAAGTGTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'78-79,'78-78,79-79=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=0.062 A=0.102 C2=0.045
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(52.3=93.8)
A:
PF0767911=I-set=PU(52.3=93.9)
C2:
PF0767911=I-set=PD(46.6=93.2)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGCGTGTTTTGTCCAGTGG
R:
TACTCTCTTGCGCTCTGTTCC
Band lengths:
243-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]