HsaEX6056153 @ hg19
Exon Skipping
Gene
ENSG00000001617 | SEMA3F
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F [Source:HGNC Symbol;Acc:10728]
Coordinates
chr3:50214201-50220199:+
Coord C1 exon
chr3:50214201-50214294
Coord A exon
chr3:50219717-50219836
Coord C2 exon
chr3:50220077-50220199
Length
120 bp
Sequences
Splice sites
3' ss Seq
ACCCACTGGCCTACCCACAGATG
3' ss Score
8.27
5' ss Seq
ACGGTAAGC
5' ss Score
9.89
Exon sequences
Seq C1 exon
GATTACATCTTCTACCTGGAGCCTGAGCGACTCGAGTCAGGGAAGGGCAAGTGTCCGTACGATCCCAAGCTGGACACAGCATCGGCCCTCATCA
Seq A exon
ATGAGGAGCTCTATGCTGGTGTGTACATCGATTTTATGGGCACTGATGCAGCCATCTTCCGCACACTTGGAAAGCAGACAGCCATGCGCACGGATCAGTACAACTCCCGGTGGCTGAACG
Seq C2 exon
ACCCGTCGTTCATCCATGCTGAGCTCATTCCTGACAGTGCGGAGCGCAATGATGATAAGCTTTACTTCTTCTTCCGTGAGCGGTCGGCAGAGGCGCCGCAGAGCCCCGCGGTGTACGCCCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000001617-'11-17,'11-15,13-17=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=0.000 C2=0.020
Domain overlap (PFAM):
C1:
PF0140314=Sema=PD(22.6=93.8)
A:
PF0140314=Sema=FE(19.2=100)
C2:
PF0140314=Sema=PD(19.2=95.2)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTACATCTTCTACCTGGAGCCTG
R:
GTACACCGCGGGGCTCTG
Band lengths:
210-330
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)