HsaINT0147226 @ hg19
Intron Retention
Gene
ENSG00000012171 | SEMA3B
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B [Source:HGNC Symbol;Acc:10724]
Coordinates
chr3:50307558-50307926:+
Coord C1 exon
chr3:50307558-50307715
Coord A exon
chr3:50307716-50307863
Coord C2 exon
chr3:50307864-50307926
Length
148 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCA
5' ss Score
3.41
3' ss Seq
CTCCCCCAACCTCCCGATAGCTG
3' ss Score
8
Exon sequences
Seq C1 exon
AGCTCCAGGCCTGGCATGGTCTCCAGACTTTCAGCCTGGAGCGAACCTGCTGCTACCAGGCCTTGCTGGTGGATGAGGAGCGTGGACGCCTGTTTGTGGGTGCCGAGAACCATGTGGCCTCCCTCAACCTGGACAACATCAGCAAGCGGGCCAAGAAG
Seq A exon
GTGCCAGGGACTCCCAACCCCAGCACTCCCCAGGGAAGGAGCCCTGGGACCCCACTCCAGCCTGGAGAGACCCAGAGGAATGGCTCCCTGAGGTAGAGAATATCCCAAGTTCCTGACCTGTGTCCCCTCTCCCCCAACCTCCCGATAG
Seq C2 exon
CTGGCCTGGCCGGCCCCTGTGGAATGGCGAGAGGAGTGCAACTGGGCAGGGAAGGACATTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000012171-SEMA3B:NM_001005914:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCATGGTCTCCAGACTT
R:
CAATGTCCTTCCCTGCCCAG
Band lengths:
210-358
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
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)