MmuEX6068708 @ mm10
Exon Skipping
Gene
ENSMUSG00000034684 | Sema3f
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3F [Source:MGI Symbol;Acc:MGI:1096347]
Coordinates
chr9:107681500-107684040:-
Coord C1 exon
chr9:107683973-107684040
Coord A exon
chr9:107683560-107683693
Coord C2 exon
chr9:107681500-107682839
Length
134 bp
Sequences
Splice sites
3' ss Seq
AGGGTCCTCTTGATCCACAGCAA
3' ss Score
5.9
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
Exon sequences
Seq C1 exon
GCGGAGTCGCCGGCAAGATGTCCGCCACGGGAACCCTATCAGACAGTGCCGTGGTTTCAATTCCAATG
Seq A exon
CAAACAAGAATGCCGTAGAGTCTGTGCAGTACGGAGTGGCCGGCAGCGCAGCTTTCCTTGAGTGTCAGCCCCGCTCACCTCAAGCCACTGTCAAGTGGCTGTTCCAGCGAGATCCCAGTGATCGGCGCCGTGAG
Seq C2 exon
ATTCGCGCAGAGGACCGCTTCCTGCGTACAGAGCAGGGGCTGTTGCTTCGCGCCCTGCAGCTTGGTGACCGCGGCCTCTACTCCTGCACGGCCACTGAGAACAACTTCAAGCACATCGTCACGCGGGTGCAGCTGCATGTACTGGGCCGGGATGCCGTCCATGCTGCCCTCTTCCCCCCACTGGCTGTGAGCGTCCCTCCACCTCCTGGCACAGGCCCTCCAACGCCTCCTTACCAGGAGCTGGCCCAGCTCCTAGCCCAGCCGGAAGTGGGCCTCATCCATCAGTACTGCCAGGGTTACTGGCGCCACGTGCCCCCCAGACCCAGGGAGGCGCCAGGAGCACTTAGGCCTCCTGAACTCCAGGACCAGAAAAAGCCGAGGAACCGCCGCCACCACCCTCCGGACACATGAGGCCAGCTGCTGGAGGCCTGCATAGGACCAGCCTAGCCCCTCATCCCTTTTAATATAAAAGATATATATATATATAAAAATATCTATAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034684-'46-47,'46-45,47-47=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=0.449
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:
AGTGCCGTGGTTTCAATTCCA
R:
TAAGGAGGCGTTGGAGGGC
Band lengths:
257-391
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types