DreEX6046236 @ danRer10
Exon Skipping
Gene
ENSDARG00000016936 | hmcn1
Description
hemicentin 1 [Source:ZFIN;Acc:ZDB-GENE-041014-322]
Coordinates
chr20:34309713-34311565:-
Coord C1 exon
chr20:34311439-34311565
Coord A exon
chr20:34310088-34310242
Coord C2 exon
chr20:34309713-34309991
Length
155 bp
Sequences
Splice sites
3' ss Seq
CTTTTCACTGTGTGTTTTAGGCC
3' ss Score
11.21
5' ss Seq
TTGGTAATT
5' ss Score
5.73
Exon sequences
Seq C1 exon
TTCCTCCTACAATCATCGGGACAGTTGGGTCACGTGACCTCTCTGCCGTGCTTAATCAAGAGATCGTTCTGGAATGTAAGGTCAAAGGTGATCCCTTTCCCACAATTCAGTGGTACAAAGACAGAAA
Seq A exon
GCCAGTGTTTCTGGGTGACCCCAACATTGAAGTTTTAAACAGAGGACAGCAGTTGAAGATAAAGAGCGCTCGCTTGGGGGACCAGGCACGATACCAGTGCAGCGCTACCAACGCAGCAGGAAAGCAGTCCAAAGATTTTAACCTCAGTATATTTG
Seq C2 exon
TGCCACCCAGTATTAAAGGAGGAAACGTGTCTTCTGAGGTGACCGTTCTGCTGGGTAACCTGGTGACTCTGGAGTGTGAGGTGCGTGGTGTGCCACTGCCTGCCGTCACATGGTACAAAAATGGAGAGGTCATTCTGTCTAGCAGACAGGCCCAGTATGTGGACCGAGGGCAGTTCCTCAAGATCTTAAGAGCTCAAGTTTCTGATGCTGGACAGTACACATGTAGAGTCACCAGTGTGGCTGGCACTGCTGAAAAAGTTGTCGAGTTGGATGTGTATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016936-'29-30,'29-29,30-30=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=0.000
Domain overlap (PFAM):
C1:
PF0767911=I-set=PU(41.4=83.7)
A:
PF0767911=I-set=PD(57.5=94.3)
C2:
PF0767911=I-set=WD(100=91.5)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACCTCTCTGCCGTGCTTAA
R:
ACATACTGGGCCTGTCTGCTA
Band lengths:
253-408
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]