HsaEX0043606 @ hg19
Exon Skipping
Gene
ENSG00000168743 | NPNT
Description
nephronectin [Source:HGNC Symbol;Acc:27405]
Coordinates
chr4:106863464-106880283:+
Coord C1 exon
chr4:106863464-106863859
Coord A exon
chr4:106879628-106879714
Coord C2 exon
chr4:106880185-106880283
Length
87 bp
Sequences
Splice sites
3' ss Seq
TCAAAACCTTTCTCTTGCAGTTC
3' ss Score
9.08
5' ss Seq
CAGGTGACA
5' ss Score
5.49
Exon sequences
Seq C1 exon
ATATCCCAAAAGTTATGATTGAACCTTCAGGTCCAATTCATGTACCAAAGGGAAATGGTACCATTTTAAAGGGTGACACAGGAAATAATAATTGGATTCCTGATGTTGGAAGTACTTGGTGGCCTCCGAAGACACCATATATTCCTCCTATCATTACCAACAGGCCTACTTCTAAGCCAACAACAAGACCTACACCAAAGCCAACACCAATTCCTACTCCACCACCACCACCACCCCTGCCAACAGAGCTCAGAACACCTCTACCACCTACAACCCCAGAAAGGCCAACCACCGGACTGACAACTATAGCACCAGCTGCCAGTACACCTCCAGGAGGGATTACAGTTGACAACAGGGTACAGACAGACCCTCAGAAACCCAGAGGAGATGTGTTCA
Seq A exon
TTCCACGGCAACCTTCAAATGACTTGTTTGAAATATTTGAAATAGAAAGAGGAGTCAGTGCAGACGATGAAGCAAAGGATGATCCAG
Seq C2 exon
GTGTTCTGGTACACAGTTGTAATTTTGACCATGGACTTTGTGGATGGATCAGGGAGAAAGACAATGACTTGCACTGGGAACCAATCAGGGACCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168743_CASSETTE2
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
Show structural model
Features
Disorder rate (Iupred):
C1=0.764 A=0.753 C2=0.216
Domain overlap (PFAM):
C1:
NO
A:
NO
C2:
PF0062918=MAM=PU(23.5=79.4)
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCCAGTACACCTCCAGGAG
R:
CCTGATTGGTTCCCAGTGCAA
Band lengths:
170-257
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)