DreEX6046215 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34364122-34368766:-
Coord C1 exon
chr20:34368698-34368766
Coord A exon
chr20:34364417-34364575
Coord C2 exon
chr20:34364122-34364244
Length
159 bp
Sequences
Splice sites
3' ss Seq
AATAATAATGGTCTTTTCAGGGA
3' ss Score
6.48
5' ss Seq
CAGGTAATC
5' ss Score
6.99
Exon sequences
Seq C1 exon
ATCGGGCCCATTACTATAACAACTGATCCAAAGAAGTTCCAGGATGAGCTGCGGGAGCTTTACGTCCAG
Seq A exon
GGAGGTGGAGATTGTCCAGAGATGAGCATCGGAGCCATCAAGATCGCCCTTGAGATCTCCTTACCAGGGTCCTACATTTACGTGTTTACAGATGCCCGCTCAAAAGACTACAGGTTGACCCATGATGTTCTTCAGCTCATTCAGCAGAAACAGTCACAG
Seq C2 exon
GTGGTTTTTGTGTTGACTGGTGACTGTGACGACCGGTCACACATTGGCTATAAAGTATATGAAGAAATTGCCTCGACCAGCTCGGGACAGGTCTTCCATCTGGACAAGAAACAAGTCAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'1-2,'1-1,2-2=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF135191=VWA_2=FE(12.9=100)
A:
PF135191=VWA_2=FE(30.4=100)
C2:
PF135191=VWA_2=FE(23.4=100)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGGGCCCATTACTATAACAACTG
R:
TGACTTGTTTCTTGTCCAGATGGA
Band lengths:
186-345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]