HsaINT0106830 @ hg19
Intron Retention
Gene
ENSG00000117983 | MUC5B
Description
mucin 5B, oligomeric mucus/gel-forming [Source:HGNC Symbol;Acc:7516]
Coordinates
chr11:1276271-1276788:+
Coord C1 exon
chr11:1276271-1276496
Coord A exon
chr11:1276497-1276612
Coord C2 exon
chr11:1276613-1276788
Length
116 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CTGATCGCTTTGCCCCACAGGGT
3' ss Score
10.3
Exon sequences
Seq C1 exon
GCACCTGCACCAACAACCAGAGGGACGACTGTCTCCAGCGGGACGGAACCACTGCCGCCAGTTGCAAGGACATGGCCAAGACGTGGCTGGTCCCCGACAGCAGAAAGGATGGCTGCTGGGCCCCGACTGGCACACCCCCCACTGCCAGCCCCGCAGCCCCGGTGTCTAGCACACCCACCCCCACCCCATGCCCACCACAGCCGCTCTGTGATCTGATGCTGAGCCA
Seq A exon
GTGAGTCCTCCCCTCGGGGGTTGCAGGCCCTGGGGCGCCCCCGCCCGCCCGCATGCACGCACGCACGCAGCTCCCTGGGGCTGGGGGCCCTCCGTCCTGATCGCTTTGCCCCACAG
Seq C2 exon
GGTCTTTGCTGAGTGCCACAACCTTGTGCCCCCGGGCCCATTCTTCAACGCCTGCATCAGCGACCACTGCAGGGGCCGCCTTGAGGTGCCCTGCCAGAGCCTGGAGGCTTACGCAGAGCTCTGCCGCGCCCGGGGAGTGTGCAGTGACTGGCGAGGTGCAACCGGTGGCCTGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117983-MUC5B:NM_002458:36
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
In the CDS, with uncertain impact
No structure available
Features
Disorder rate (Iupred):
C1=0.237 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(9.8=21.1),PF087426=C8=PU(17.8=17.1)
A:
NA
C2:
PF087426=C8=FE(80.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACAACCAGAGGGACGACTG
R:
ACAAGGTTGTGGCACTCAGC
Band lengths:
243-359
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)