DreEX6046219 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34353065-34360501:-
Coord C1 exon
chr20:34360395-34360501
Coord A exon
chr20:34357304-34357424
Coord C2 exon
chr20:34353065-34353328
Length
121 bp
Sequences
Splice sites
3' ss Seq
TGTTGTCAATTTGACCACAGACG
3' ss Score
6.15
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
Exon sequences
Seq C1 exon
GTAAACTTATCGGAATTAAGGAAGGTCTGTCTGAGCTTCTTCACATCCCAAACTCCGCTAAAGTTCTCAACCTCAAAGATCCTGCCCCAGGAATGTGGACCATAAAG
Seq A exon
ACGTCCAGTGAGGGCAGACATTCGGTCCGCATATCAGGGCTCAGCACCATCGATTTCCGAGCTGGCTTTTCTCGAAGACAAACGTTGGACTTTAAAATGACATCCAGCCGGCCAGTACAAG
Seq C2 exon
GAATCCCCACCTTCATCCTTCTGAACACCACTGGTCTTTCTCCTCCCGCTCGCACCGACCGCCTGGAACTCTTGAGCATCACTGGTAGAGTAATGAAGACGCTGCCCATCCGCTACTTCCCCGAACGACACCCTTATGGCATTTGGAACATCACCGAGTTTGTTCCACCCAAAGAGGCGTTCTTCCTGCGGGTAACCGGCTATGATCGCGATGGCTTCCTCTTTCAGAGAGTGTCAAGTGTCTCCTATTCCAGCATTGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'5-6,'5-5,6-6=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=0.056 A=0.024 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
NO
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTCACATCCCAAACTCCGC
R:
TTGGGTGGAACAAACTCGGTG
Band lengths:
242-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]