MmuEX6001486 @ mm10
Exon Skipping
Gene
ENSMUSG00000019647 | Sema6a
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A [Source:MGI Symbol;Acc:MGI:1203727]
Coordinates
chr18:47304104-47368830:-
Coord C1 exon
chr18:47368238-47368830
Coord A exon
chr18:47306356-47306493
Coord C2 exon
chr18:47304104-47304221
Length
138 bp
Sequences
Splice sites
3' ss Seq
GCTCTTTTGCTCTTTGGCAGGGT
3' ss Score
7.64
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
GAGCCGGCCAGAGCCCTGCACCTCTGCCTCAACCCCCCACACCGCCCCCCGCCCTGAAATGACTAGTTAATGGGCGCTGGCACCGCCGAGGGGACTCAGAAGTGAATCCAAGTGGAATTTGGATTTGGAAAAAGAGTTTCTTGAGCATTTACCCTGGTCCTCGCTGGTTTTCTTCTTTTTTCTGTTTTTTCCCTTTTTTCTTTTTCTTTTTTCAGTTATTTTATTTTACTTTTTATTTTTATTTTTTATTTTTGGTCTTCCTCTCACCTCCTCTTCTGTCATTGGAGATGAACACAGCTCGCTTGCATCCCAGAAAGTAATCGCCGTGACTGTTGCCCCCAAAGAGACAAGCACACATGTAGGAATGACAAAGGCTTGCGAAGGAAAGAGCGCAGCTCAAGGCCCAGAGAGATCTTCTCGATAATGGATTACTAAATGGGATACTCGCCGTGTCAGTCCGCTCCGAGCCGCGGCCGCCTGCCCGTCGATGCACCGAAAAG
Seq A exon
GGTGAAGTAGAGAAGCAAGTCCCCCCGCTGAACCTACTATGCGGCCAGCAGCCTTACTGCTGTGTCTCACACTGCTACACTGCGCTGGGGCTGGTTTCCCAGAAGATTCCGAGCCAATCAGTATTTCGCATGGCAACT
Seq C2 exon
ATACAAAACAGTATCCGGTGTTTGTGGGCCACAAGCCAGGACGGAACACCACGCAGAGGCACAGGCTGGACATCCAGATGATCATGATCATGAACAGAACCCTCTACGTTGCTGCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019647-'0-6,'0-5,9-6
Average complexity
S
Mappability confidence:
85%=78=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.000 C2=0.025
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0140314=Sema=PU(10.6=42.5)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACAAAGGCTTGCGAAGGAA
R:
GAGCAGCAACGTAGAGGGTTC
Band lengths:
252-390
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