HsaEX0043605 @ hg19
Exon Skipping
Gene
ENSG00000168743 | NPNT
Description
nephronectin [Source:HGNC Symbol;Acc:27405]
Coordinates
chr4:106848493-106858285:+
Coord C1 exon
chr4:106848493-106848585
Coord A exon
chr4:106853771-106853860
Coord C2 exon
chr4:106858166-106858285
Length
90 bp
Sequences
Splice sites
3' ss Seq
ACCTTCTTCCTGGTGTGAAGACG
3' ss Score
2.53
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
Exon sequences
Seq C1 exon
CTGTGTGCCAACCACGATGCAAACATGGTGAATGTATCGGGCCAAACAAGTGCAAGTGTCATCCTGGTTATGCTGGAAAAACCTGTAATCAAG
Seq A exon
ACGAGCACATCCCAGCTCCTCTTGACCAAGGCAGTGAACAGCCTCTTTTCCAACCCCTGGATCACCAAGCCACAAGTTTGCCTTCAAGGG
Seq C2 exon
ATCTAAATGAGTGTGGCCTGAAGCCCCGGCCCTGTAAGCACAGGTGCATGAACACTTACGGCAGCTACAAGTGCTACTGTCTCAACGGATATATGCTCATGCCGGATGGTTCCTGCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168743_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.000 A=0.097 C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=PU(0.1=0.0)
A:
PF0764510=EGF_CA=PU(0.1=0.0)
C2:
PF146701=FXa_inhibition=PU(82.8=96.0),PF146701=FXa_inhibition=PU(5.1=8.0)
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATCGGGCCAAACAAGTGCAA
R:
GAACCATCCGGCATGAGCATA
Band lengths:
171-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)