DreEX6046299 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34256202-34258637:-
Coord C1 exon
chr20:34258275-34258637
Coord A exon
chr20:34256454-34256573
Coord C2 exon
chr20:34256202-34256328
Length
120 bp
Sequences
Splice sites
3' ss Seq
TCCCCATTTTGTGTTTGTAGATA
3' ss Score
9.23
5' ss Seq
AAGGTAAAA
5' ss Score
8.38
Exon sequences
Seq C1 exon
ATATAAACGAGTGTGAGCTGGTACCGGTGCCCTGTGCCTATCAGTGCGTGAACAGCCCTGGCAGCTACAAGTGCCTGTGCCCACCGGGGCTCCACCTGTTGGGCGATGGCAAGTCCTGTGCTGGACTAGAGCGCTTGCCCAGCTATGAGACTTTCTCATATGGGTACAGAACATCCCAGTCCTCCTCTGATCGGAGCTCCTACCTGCAGCGATACCATAGCCTGACATCCCAGAGTTACCACTCATATGTACCCAATGGGGGGCGTCATGTGGCCAACAGACCCAACAGTGCCCCTTCACGCAATCGTAGGAGTACTTATATCTGTCCTCATGGTTTTAAGACCAAAAATGGCCATTGCTTAG
Seq A exon
ATATTAATGAGTGTGAACAGAGGGATACATGTCAGCACGAGTGTATGAACACTCCAGGCAGCCATAGGTGTTTGTGTCCCAGCGGCTATCGGCTTATGACCAACGGAAAAACCTGCCAAG
Seq C2 exon
ACATAGATGAATGCCTAGAGCAGAACATTCAGTGTGGTGCAAACAGGATGTGTTTCAACATGAGAGGGAGTTACCAGTGTATCGACACACCTTGCCCACCCAATTATCAGAGAGATCCTGCCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'117-115,'117-114,118-115=AN
Average complexity
A_C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.123 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=32.8)
A:
PF126622=cEGF=PU(83.3=48.8)
C2:
PF126622=cEGF=PD(12.5=7.0),PF129472=EGF_3=WD(100=81.4)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCGATACCATAGCCTGAC
R:
GTGGGCAAGGTGTGTCGATAC
Band lengths:
257-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]