HsaINT0147468 @ hg38
Intron Retention
Gene
ENSG00000167680 | SEMA6B
Description
semaphorin 6B [Source:HGNC Symbol;Acc:HGNC:10739]
Coordinates
chr19:4558026-4558489:-
Coord C1 exon
chr19:4558337-4558489
Coord A exon
chr19:4558150-4558336
Coord C2 exon
chr19:4558026-4558149
Length
187 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
CTCTCCACCCCCTCACTCAGACC
3' ss Score
6.32
Exon sequences
Seq C1 exon
GCGTCACCTCCTCCTGTCGCCTGGCCCTCGCCATGCAGACCCCGCGAGCGTCCCCTCCCCGCCCGGCCCTGCTGCTTCTGCTGCTGCTACTGGGGGGCGCCCACGGCCTCTTTCCTGAGGAGCCGCCGCCGCTTAGCGTGGCCCCCAGGGACT
Seq A exon
GTGAGTCTGGGGGTGTCTTTGGGCGGGGGTGGAGTCCCGTGGGAGTATCTGGGTTCCCAGTTGGGTCTGCTGCCCCCACTGGGGGACTCAAGCAGTCCAGGAGCCACCCCTAGAAGGGGCATGACCTCAGGCCACCCTCTCTTCACCCCCAGCCCTTGCTCACACCCCTCTCCACCCCCTCACTCAG
Seq C2 exon
ACCTGAACCACTATCCCGTGTTTGTGGGCAGCGGGCCCGGACGCCTGACCCCCGCAGAAGGTGCTGACGACCTCAACATCCAGCGAGTCCTGCGGGTCAACAGGACGCTGTTCATTGGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167680:ENST00000586582:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.171 A=NA C2=0.048
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(4.0=40.5)
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:
GTCACCTCCTCCTGTCGCC
R:
CAGGACTCGCTGGATGTTGAG
Band lengths:
243-430
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