DreEX0037756 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34284903-34287689:-
Coord C1 exon
chr20:34287528-34287689
Coord A exon
chr20:34285467-34285580
Coord C2 exon
chr20:34284903-34285105
Length
114 bp
Sequences
Splice sites
3' ss Seq
CTGTCATATTCTGTCTCTAGGTG
3' ss Score
11.94
5' ss Seq
ATGGTTAGT
5' ss Score
7.07
Exon sequences
Seq C1 exon
TATCTCCCACTATTGTGGGCATCAGAGAGGAGAATGTGACCGTGGTGTTGAATAACTTTGTATCTCTAAACTGTGAGGCCACTGGACTCCCGCCACCAACCCTCAGATGGTTCAAAGACAGGAGACCTGTACAGGCTAGCACCAACGCACTCATAATGCCTG
Seq A exon
GTGGTCGTACTCTCCAGATCCTGAAAGCAAAGATGTCTGATGGGGGGAAATACAGCTGTGTTGCTGTCAACCCAGCAGGAGAAGCCCAAAAACTTATTTATCTTACAGTATATG
Seq C2 exon
TGCCTCCCAGTATCAGACACAACAGTGGGGATCTTCCGGTGGTGTTAAATGTTCAGGTGGGCAAATCTGTTATGCTGGAGTGTGAATCTAATGCAGTGCCTCCTCCTGTCATCACCTGGTACAAAAATGGACGGCCTATCGCTGAGACTGCCAACTTGCGCATATTGGCGGATGGACAAATGCTGCAACTGAAGGAAACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'61-65,'61-64,62-65
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(58.4=94.5)
A:
PF0767911=I-set=PD(40.4=92.3)
C2:
PF0767911=I-set=PU(67.9=83.8)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGGAGAATGTGACCGTGGT
R:
ACCAGGTGATGACAGGAGGAG
Band lengths:
257-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]