HsaINT0147336 @ hg38
Intron Retention
Gene
ENSG00000185033 | SEMA4B
Description
semaphorin 4B [Source:HGNC Symbol;Acc:HGNC:10730]
Coordinates
chr15:90225282-90225827:+
Coord C1 exon
chr15:90225282-90225397
Coord A exon
chr15:90225398-90225660
Coord C2 exon
chr15:90225661-90225827
Length
263 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CCCCGTGTCTGGCTGTGCAGGGG
3' ss Score
6.89
Exon sequences
Seq C1 exon
GTGACGGCCGGCTCCACAAGGCAGTGAGCGTGGGCCCCCGGGTGCACATCATTGAGGAGCTGCAGATCTTCTCATCGGGACAGCCCGTGCAGAATCTGCTCCTGGACACCCACAGG
Seq A exon
GTGAGCAGGCCAACGAGGAATCCTGGCAGGGTACTTGGGGGGTGCCCTCCATTAGCACCAAGCAGTCCCCACCCAGCTTCTCCTCCCTTGCCTCAGGAGGATGGAAAGATAAAGGATCCAGTCATGAACTATTAGAAAGTGGGGTCGCCTGTTACGTAACAGGCCTCTTGGGGGTGGCTCTGGGAGGCATACAAGCCGGGTGGCCATGGGTGATGGCCCTGGCTGCCCATGCCCGCTTCTCATCCCCGTGTCTGGCTGTGCAG
Seq C2 exon
GGGCTGCTGTATGCGGCCTCACACTCGGGCGTAGTCCAGGTGCCCATGGCCAACTGCAGCCTGTACAGGAGCTGTGGGGACTGCCTCCTCGCCCGGGACCCCTACTGTGCTTGGAGCGGCTCCAGCTGCAAGCACGTCAGCCTCTACCAGCCTCAGCTGGCCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000185033:ENST00000411539:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=PD(52.0=78.0)
A:
NA
C2:
PF0140314=Sema=PD(0.1=0.0),PF0143720=PSI=PU(67.3=66.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCACAAGGCAGTGAGC
R:
CTGGTAGAGGCTGACGTGCTT
Band lengths:
256-519
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