HsaALTA0003427-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000115414 | FN1
Description
fibronectin 1 [Source:HGNC Symbol;Acc:3778]
Coordinates
chr2:216236667-216237023:-
Coord C1 exon
chr2:216236832-216237023
Coord A exon
chr2:216236692-216236738
Coord C2 exon
chr2:216236667-216236691
Length
47 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
CAATCCAAATGCCTCTACAGGAC
3' ss Score
5.77
Exon sequences
Seq C1 exon
TTCAAAAGACCCCTTTCGTCACCCACCCTGGGTATGACACTGGAAATGGTATTCAGCTTCCTGGCACTTCTGGTCAGCAACCCAGTGTTGGGCAACAAATGATCTTTGAGGAACATGGTTTTAGGCGGACCACACCGCCCACAACGGCCACCCCCATAAGGCATAGGCCAAGACCATACCCGCCGAATGTAG
Seq A exon
GACAAGAAGCTCTCTCTCAGACAACCATCTCATGGGCCCCATTCCAG
Seq C2 exon
GACACTTCTGAGTACATCATTTCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115414-80-93,80-92-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.989 A=NA C2=0.414
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(9.0=10.8)
A:
NA
C2:
PF0004116=fn3=PU(47.8=91.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCAGCAACCCAGTGTT
R:
ATGAAATGATGTACTCAGAAGTGTC
Band lengths:
146-193
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)