HsaEX0042903 @ hg19
Exon Skipping
Gene
ENSG00000116962 | NID1
Description
nidogen 1 [Source:HGNC Symbol;Acc:7821]
Coordinates
chr1:236156945-236176860:-
Coord C1 exon
chr1:236176711-236176860
Coord A exon
chr1:236175221-236175343
Coord C2 exon
chr1:236156945-236157172
Length
123 bp
Sequences
Splice sites
3' ss Seq
GCCTGGTGGCTGTTTTACAGATG
3' ss Score
7.39
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
Exon sequences
Seq C1 exon
CTGTCGTGGACCAGCGCCCCATCAACTACTGTGAAACTGGCCTTCATAACTGCGACATACCCCAGCGGGCCCAGTGTATCTACACAGGAGGCTCCTCCTACACCTGTTCCTGCTTGCCAGGCTTTTCTGGGGATGGCCAAGCCTGCCAAG
Seq A exon
ATGTAGATGAATGCCAGCCAAGCCGATGTCACCCTGACGCCTTCTGCTACAACACTCCAGGCTCTTTCACGTGCCAGTGCAAACCTGGTTATCAGGGAGACGGCTTCCGTTGCGTGCCCGGAG
Seq C2 exon
AGGTGGAGAAAACCCGGTGCCAGCACGAGCGAGAACACATTCTCGGGGCAGCGGGGGCGACAGACCCACAGCGACCCATTCCTCCGGGGCTGTTCGTTCCTGAGTGCGATGCGCACGGGCACTACGCGCCCACCCAGTGCCACGGCAGCACCGGCTACTGCTGGTGCGTGGATCGCGACGGCCGCGAGGTGGAGGGCACCAGGACCAGGCCCGGGATGACGCCCCCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116962_MULTIEX1-3/3=2-C2
Average complexity
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=0.344
Domain overlap (PFAM):
C1:
PF126622=cEGF=PU(81.8=35.3)
A:
PF126622=cEGF=PD(13.6=7.1),PF129472=EGF_3=WD(100=81.0)
C2:
PF0008613=Thyroglobulin_1=WD(100=92.2)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCCCCATCAACTACTGTGAA
R:
CATCGCACTCAGGAACGAACA
Band lengths:
247-370
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)