HsaEX0043603 @ hg19
Exon Skipping
Gene
ENSG00000168743 | NPNT
Description
nephronectin [Source:HGNC Symbol;Acc:27405]
Coordinates
chr4:106880185-106892831:+
Coord C1 exon
chr4:106880185-106880283
Coord A exon
chr4:106888345-106888601
Coord C2 exon
chr4:106890052-106892831
Length
257 bp
Sequences
Splice sites
3' ss Seq
CCCTGCTTTTCCCATTCCAGGTG
3' ss Score
12.57
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
Exon sequences
Seq C1 exon
GTGTTCTGGTACACAGTTGTAATTTTGACCATGGACTTTGTGGATGGATCAGGGAGAAAGACAATGACTTGCACTGGGAACCAATCAGGGACCCAGCAG
Seq A exon
GTGGACAATATCTGACAGTGTCGGCAGCCAAAGCCCCAGGGGGAAAAGCTGCACGCTTGGTGCTACCTCTCGGCCGCCTCATGCATTCAGGGGACCTGTGCCTGTCATTCAGGCACAAGGTGACGGGGCTGCACTCTGGCACACTCCAGGTGTTTGTGAGAAAACACGGTGCCCACGGAGCAGCCCTGTGGGGAAGAAATGGTGGCCATGGCTGGAGGCAAACACAGATCACCTTGCGAGGGGCTGACATCAAGAGC
Seq C2 exon
GTCGTCTTCAAAGGTGAAAAAAGGCGTGGTCACACTGGGGAGATTGGATTAGATGATGTGAGCTTGAAAAAAGGCCACTGCTCTGAAGAACGCTAACAACTCCAGAACTAACAATGAACTCCTATGTTGCTCTATCCTCTTTTTCCAATTCTCATCTTCTCTCCTCTTCTCCCTTTTATCAGGCCTAGGAGAAGAGTGGGTCAGTGGGTCAGAAGGAAGTCTATTTGGTGACCCAGGTTTTTCTGGCCTGCTTTTGTGCAATCCCAATGAACAGTGATACCCTCCTTGAAATACAGGGGCATCGCAGACACATCAAAGCCATCTGTGGGTGTTGCCTTCCATCCTGTGTCTCTTTCAGGAAGGCATTCAGCATGCGTGAGCCATACCATCCTCCATCCTGATTACAAGGTGCTCCTTGTAGCAAATTATGAGAGTGAGTTACGGGAGCAGTTTTTAAAAGAAATCTTTGCAGATGGCTATGATGTTATGTGTTCGGTGTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168743-'23-31,'23-30,24-31
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=0.096 C2=0.188
Domain overlap (PFAM):
C1:
PF0062918=MAM=PU(23.5=79.4)
A:
PF0062918=MAM=FE(73.9=100)
C2:
PF0062918=MAM=PD(19.7=87.5)
Other Inclusion Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAATGACTTGCACTGGGAACC
R:
GATTGCACAAAAGCAGGCCAG
Band lengths:
302-559
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)