HsaINT0106815 @ hg19
Intron Retention
Gene
ENSG00000117983 | MUC5B
Description
mucin 5B, oligomeric mucus/gel-forming [Source:HGNC Symbol;Acc:7516]
Coordinates
chr11:1256315-1256643:+
Coord C1 exon
chr11:1256315-1256453
Coord A exon
chr11:1256454-1256532
Coord C2 exon
chr11:1256533-1256643
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGC
5' ss Score
10.12
3' ss Seq
CTTGTCTCTTTCTGGCCCAGGAC
3' ss Score
9.46
Exon sequences
Seq C1 exon
CACCTGCAGGAACCGGAGGTGGGAGTGCAGCCACCGGCTCTGCCTGGGCACCTGCGTGGCCTACGGGGATGGCCACTTCATCACCTTTGATGGCGATCGCTACAGCTTTGAAGGCAGCTGCGAGTACATCTTGGCCCAG
Seq A exon
GTACGCCGCCCCCTCGCCCACTCCTGCAGGCCGGGCACACTCCAGCCCGCGGCCAGCAGCTTGTCTCTTTCTGGCCCAG
Seq C2 exon
GACTACTGTGGGGACAACACCACCCACGGGACCTTCCGCATCGTCACCGAGAACATCCCCTGTGGGACCACCGGCACCACCTGCTCCAAGGCCATCAAGCTCTTCGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117983-MUC5B:NM_002458:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.050
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(64.4=80.9),PF0009420=VWD=PU(18.8=59.6)
A:
NA
C2:
PF0009420=VWD=FE(24.2=100)
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:
ATCACCTTTGATGGCGATCGC
R:
ACGAAGAGCTTGATGGCCTTG
Band lengths:
167-246
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)