HsaEX0057088 @ hg38
Exon Skipping
Gene
ENSG00000196189 | SEMA4A
Description
semaphorin 4A [Source:HGNC Symbol;Acc:HGNC:10729]
Coordinates
chr1:156153527-156156574:+
Coord C1 exon
chr1:156153527-156153764
Coord A exon
chr1:156154550-156154717
Coord C2 exon
chr1:156156414-156156574
Length
168 bp
Sequences
Splice sites
3' ss Seq
CCGGGTGCCTGTTTCCCCAGAGC
3' ss Score
7.68
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
Exon sequences
Seq C1 exon
CCAGGATCTGTCACAACTCGAGAGGTGGAAATTCCGGTTTCCCTGGCCTAGAGCTCCCAGTGCTGGCTTTGGCATGATGGGCACCTGGAGGGCCGCACTCCCGTTCCAGCCAGGCTGAGCCTTCTGTCCCCTGCCTCTGGGGCCTGGGAACCCCCCTTCTTCTTTCTCCTGAATGGCACCCCCGCCCTAGAATCCAGACACCGAGTTTCCCACTGTGGCTGGTTCAAGGGTATGTGAG
Seq A exon
AGCTCCCTGGTGACAGTCTGTGGCTGAGCATGGCCCTCCCAGCCCTGGGCCTGGACCCCTGGAGCCTCCTGGGCCTTTTCCTCTTCCAACTGCTTCAGCTGCTGCTGCCGACGACGACCGCGGGGGGAGGCGGGCAGGGGCCCATGCCCAGGGTCAGATACTATGCAG
Seq C2 exon
GGGATGAACGTAGGGCACTTAGCTTCTTCCACCAGAAGGGCCTCCAGGATTTTGACACTCTGCTCCTGAGTGGTGATGGAAATACTCTCTACGTGGGGGCTCGAGAAGCCATTCTGGCCTTGGATATCCAGGATCCAGGGGTCCCCAGGCTAAAGAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196189-'6-15,'6-12,9-15
Average complexity
C2
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref, Alt. ATG (>10 exons))
No structure available
Features
Disorder rate (Iupred):
C1=NA A=0.055 C2=0.007
Domain overlap (PFAM):
C1:
NA
A:
NO
C2:
PF0140314=Sema=PU(14.0=66.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGAGAGGTGGAAATTCCGGT
R:
GGTGGAAGAAGCTAAGTGCCC
Band lengths:
254-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development