DreEX6046221 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34346752-34352953:-
Coord C1 exon
chr20:34352809-34352953
Coord A exon
chr20:34351104-34351225
Coord C2 exon
chr20:34346752-34347021
Length
122 bp
Sequences
Splice sites
3' ss Seq
TTTTTTATTTATCTTTTTAGGGA
3' ss Score
11.62
5' ss Seq
CTGGTTAGA
5' ss Score
3.13
Exon sequences
Seq C1 exon
ATGCACCCAAAGTAAGCATGCCAAGTCGTACCCCGGGCTACTACCTGCAGAAGGGGGGTATTACATGTTTTGTGGAAAGCCTGATTCCCTTTACCTTGCGGTTCACCAGGGAGGGTCTGCGTCTGGGTGTGGATCAGCTCTTCAG
Seq A exon
GGAGTCTACTAATGCATCATGGCCAATTGCTCAAGTGACCCTGAAGGATGAAGGCTTTTATGAGTGCATCGCCATCAGCAGTGCTGGAACAGGACGGGCTCAGACCTTCCTTGACGTTTCTG
Seq C2 exon
AGCCTCCTCCTGCTATAACAGTGCCCTTCAATGCGACAGCATCTCCTGGTGCAAATGTCATTCTGACATGTCTGGTCACCAGTACGGTGCGCTTTAACCTGACTTGGCAGCGAGGGGACGTAGATGCCAGATTGGACCATCGCATACGAGTCACTACTAACCTGTCCTTGGAAATCCAGAGAGTGACTCCCGATGATGTTGGTTGGTACACATGTATAGCAGCCAATGAGGGCGGAGTCTCTGCTGCTCGTGTCTACCTGAATGTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'8-9,'8-8,9-9=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=0.033
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0767911=I-set=WD(100=95.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTACCTTGCGGTTCACCAGG
R:
CATCGGGAGTCACTCTCTGGA
Band lengths:
251-373
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]