HsaINT0147335 @ hg38
Intron Retention
Gene
ENSG00000185033 | SEMA4B
Description
semaphorin 4B [Source:HGNC Symbol;Acc:HGNC:10730]
Coordinates
chr15:90224968-90225397:+
Coord C1 exon
chr15:90224968-90225178
Coord A exon
chr15:90225179-90225281
Coord C2 exon
chr15:90225282-90225397
Length
103 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GAGTCCTGTCCACACCCCAGGTG
3' ss Score
4.01
Exon sequences
Seq C1 exon
TGCATCACCAACAGTGCCCGGGAAAGGAAGATCAACTCATCCCTGCAGCTCCCAGACCGCGTGCTGAACTTCCTCAAGGACCACTTCCTGATGGACGGGCAGGTCCGAAGCCGCATGCTGCTGCTGCAGCCCCAGGCTCGCTACCAGCGCGTGGCTGTACACCGCGTCCCTGGCCTGCACCACACCTACGATGTCCTCTTCCTGGGCACTG
Seq A exon
GTAAGTGTCTGCAGCCCAGCAGGCTCAGGGGAAGGGGTGCACGTGGCTGGTGGGTCATGGGCAGTGGGCTCCACCCAGGGCCTGAGTCCTGTCCACACCCCAG
Seq C2 exon
GTGACGGCCGGCTCCACAAGGCAGTGAGCGTGGGCCCCCGGGTGCACATCATTGAGGAGCTGCAGATCTTCTCATCGGGACAGCCCGTGCAGAATCTGCTCCTGGACACCCACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000185033:ENST00000411539:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(16.0=100)
A:
NA
C2:
PF0140314=Sema=PD(52.0=78.0)
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:
GCCCGGGAAAGGAAGATCAAC
R:
AGCTCCTCAATGATGTGCACC
Band lengths:
257-360
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