HsaEX0042902 @ hg19
Exon Skipping
Gene
ENSG00000116962 | NID1
Description
nidogen 1 [Source:HGNC Symbol;Acc:7821]
Coordinates
chr1:236156945-236180573:-
Coord C1 exon
chr1:236180448-236180573
Coord A exon
chr1:236176711-236176860
Coord C2 exon
chr1:236156945-236157172
Length
150 bp
Sequences
Splice sites
3' ss Seq
ATCAACCTTTTGTTCTGAAGCTG
3' ss Score
5.67
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
Exon sequences
Seq C1 exon
ATATTGATGAATGTTCAGAACAACCCTCAGTGTGTGGGAGCCACACAATCTGCAATAATCACCCAGGAACCTTCCGCTGCGAGTGTGTGGAGGGCTACCAGTTTTCAGATGAGGGAACGTGTGTGG
Seq A exon
CTGTCGTGGACCAGCGCCCCATCAACTACTGTGAAACTGGCCTTCATAACTGCGACATACCCCAGCGGGCCCAGTGTATCTACACAGGAGGCTCCTCCTACACCTGTTCCTGCTTGCCAGGCTTTTCTGGGGATGGCCAAGCCTGCCAAG
Seq C2 exon
AGGTGGAGAAAACCCGGTGCCAGCACGAGCGAGAACACATTCTCGGGGCAGCGGGGGCGACAGACCCACAGCGACCCATTCCTCCGGGGCTGTTCGTTCCTGAGTGCGATGCGCACGGGCACTACGCGCCCACCCAGTGCCACGGCAGCACCGGCTACTGCTGGTGCGTGGATCGCGACGGCCGCGAGGTGGAGGGCACCAGGACCAGGCCCGGGATGACGCCCCCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116962_MULTIEX1-2/3=1-C2
Average complexity
C2
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:
PF0764510=EGF_CA=WD(100=95.3)
A:
PF126622=cEGF=PU(81.8=35.3)
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:
TGCAATAATCACCCAGGAACCT
R:
GATCCACGCACCAGCAGTAG
Band lengths:
250-400
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)