HsaINT0147228 @ hg38
Intron Retention
Gene
ENSG00000012171 | SEMA3B
Description
semaphorin 3B [Source:HGNC Symbol;Acc:HGNC:10724]
Coordinates
chr3:50270890-50271181:+
Coord C1 exon
chr3:50270890-50271009
Coord A exon
chr3:50271010-50271087
Coord C2 exon
chr3:50271088-50271181
Length
78 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
CAACTTGCCACACCTCCCAGGAG
3' ss Score
4.96
Exon sequences
Seq C1 exon
ACTGAGTGCATGAACTTCGTGAAGTTGCTGCATGCCTACAACCGCACCCATTTGCTGGCCTGTGGCACGGGAGCCTTCCACCCAACCTGTGCCTTTGTGGAAGTGGGCCACCGGGCAGAG
Seq A exon
GTAAGGCCGGATCTAGGCAGGGAGGGAGGTCAGGAGGGTAAGAAGGGCCTGGTAGTCACAACTTGCCACACCTCCCAG
Seq C2 exon
GAGCCCGTCCTCCGGCTGGACCCAGGAAGGATAGAGGATGGCAAGGGGAAGAGTCCTTATGACCCCAGGCATCGGGCTGCCTCCGTGCTGGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000012171:ENST00000616701:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.365
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(24.4=100)
A:
NA
C2:
PF0140314=Sema=FE(19.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CTTCGTGAAGTTGCTGCATGC
R:
GCCTGGGGTCATAAGGACTCT
Band lengths:
176-254
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