DreEX6046228 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34323753-34327650:-
Coord C1 exon
chr20:34327555-34327650
Coord A exon
chr20:34323985-34324112
Coord C2 exon
chr20:34323753-34323897
Length
128 bp
Sequences
Splice sites
3' ss Seq
TCTGTATTTTTTGTGTGCAGTGT
3' ss Score
7.95
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
Exon sequences
Seq C1 exon
ACCTCTGGGTTGAGGATGAGGCCACCTATGTGTGTGAAGCTCAAAACCACTTTGGCAGAATACAGGTCAAGGCCAAAGTCACTGTGACAGGACTTG
Seq A exon
TGTCCCCTTTAATAGCTCTGAGTCCCACAGTGGTCAGTGTAATCGAGGACCAGCAGGTCACTCTTCCCTGTGTGTTACTTGCTGGAAATCCTCTTCCTGAGAGACACTGGCTGCACGACAATGGCTTG
Seq C2 exon
GTTACATCAAGTCCATATGTGACCGTGAGACGTGATGGTAGTCTACATATAGAACAGGTCAGTCAGCAGGATGGGGGACAGTACACATGTTTGACGGAAAACGTGGTGGGATCAAGCAACCGTACCACCATTCTCAACGTCTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'16-18,'16-17,17-18=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=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(30.4=84.8)
A:
PF0767911=I-set=PU(45.5=93.0)
C2:
PF0767911=I-set=PD(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:
CTCTGGGTTGAGGATGAGGCC
R:
ACGTTGAGAATGGTGGTACGG
Band lengths:
234-362
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]