HsaEX6056146 @ hg19
Exon Skipping
Gene
ENSG00000001617 | SEMA3F
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F [Source:HGNC Symbol;Acc:10728]
Coordinates
chr3:50223714-50226505:+
Coord C1 exon
chr3:50223714-50223781
Coord A exon
chr3:50224046-50224179
Coord C2 exon
chr3:50225138-50226505
Length
134 bp
Sequences
Splice sites
3' ss Seq
CAACCCCTCTCACTCTAAAGCCA
3' ss Score
5.34
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
Exon sequences
Seq C1 exon
GCGGAGCCGCCGGCAGGACGTCCGGCACGGAAACCCCATCAGGCAGTGCCGTGGGTTCAACTCCAATG
Seq A exon
CCAACAAGAATGCCGTGGAGTCTGTGCAGTATGGCGTGGCCGGCAGCGCAGCCTTCCTTGAGTGCCAGCCCCGCTCGCCCCAAGCCACTGTTAAGTGGCTGTTCCAGCGAGATCCTGGTGACCGGCGCCGAGAG
Seq C2 exon
ATTCGTGCAGAGGACCGCTTCCTGCGCACAGAGCAGGGCTTGTTGCTCCGTGCACTGCAGCTCAGCGATCGTGGCCTCTACTCCTGCACAGCCACTGAGAACAACTTTAAGCACGTCGTCACACGAGTGCAGCTGCATGTACTGGGCCGGGACGCCGTCCATGCTGCCCTCTTCCCACCACTGTCCATGAGCGCCCCGCCACCCCCAGGCGCAGGCCCCCCAACGCCTCCTTACCAGGAGTTAGCCCAGCTGCTGGCCCAGCCAGAAGTGGGCCTCATCCACCAGTACTGCCAGGGTTACTGGCGCCATGTGCCCCCCAGCCCCAGGGAGGCTCCAGGGGCACCCCGGTCTCCTGAGCCCCAGGACCAGAAAAAGCCCCGGAACCGCCGGCACCACCCTCCGGACACATGAGGCCAGCTGCCTGTGCCTGCCATGGGCCAGCCTAGCCCTTGTCCCTTTTAATATAAAAGATATATATATATATATATATATATAAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000001617-'27-29,'27-28,28-29=AN
Average complexity
A_S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (No Ref, Alt. Stop)
No structure available
Features
Disorder rate (Iupred):
C1=0.292 A=0.089 C2=0.485
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(32.1=70.8)
A:
PF0767911=I-set=PU(45.5=88.9)
C2:
PF0767911=I-set=PD(52.3=33.6)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGTGGGTTCAACTCCAATG
R:
CTGGTAAGGAGGCGTTGGGG
Band lengths:
258-392
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)