HsaINT0106827 @ hg19
Intron Retention
Gene
ENSG00000117983 | MUC5B
Description
mucin 5B, oligomeric mucus/gel-forming [Source:HGNC Symbol;Acc:7516]
Coordinates
chr11:1274039-1275581:+
Coord C1 exon
chr11:1274039-1274210
Coord A exon
chr11:1274211-1275321
Coord C2 exon
chr11:1275322-1275581
Length
1111 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CGTCCATCTCTGTCCCGCAGGCA
3' ss Score
11.64
Exon sequences
Seq C1 exon
GTGAATGAGACCTGGACCCTGGAGAACTGCACGGTGGCCAGGTGCGTGGGTGACAACCGTGTCGTCCTGCTGGACCCAAAGCCTGTGGCCAACGTCACCTGCGTGAACAAGCACCTGCCCATCAAAGTGTCGGACCCGAGCCAGCCCTGTGACTTCCACTATGAGTGCGAGT
Seq A exon
GTGAGTGCGTCGGTGGCCGCGGGATTACCCCGGGGGCAGGTGGAGCAGAGTGCACCGTCGGCTAGGCTGGCAGAATGGGGCATGGTGGGGCACAGTGGGGTGCAGTGGGGAATGGTGGGGCATGGTGGGGCATGGTGGGGTGCAGTGGGGCATGGTGGGGCATGGTGGGGTGTGGTGGTGGTGTTTGGGAGATCGCTGGCATCCCTTCAGGAAACCATCATGCACCATGCTGTCTTGGGCCTCAGTGGTGCACGTCGTGAGAGCTGTTAGTATGCAGGCTCCGTGTCCACAGGGCTGAAAATGCTGACACAGCCCAAGGGAGAGGCAGCAGAGGCTGGTTTGCTGAGCTTCTCTGCACATCAGCCTGTGTGGTTTGAAAGGGACCCTGCCCAGGGGCTTCTGGGGCCAGGAGAAGCTCAGGATGGAAGCGGGAGCCCAGAGGAGCTTTTGTCTCCTGGGTCCTAACAGCGGCTTCCATCACCGTGCGGGACCCACCGCTAAGAGGTCACGGCGTTCTCACTCCTCCCCATGTCCTTGGCCCAGGGCTGCTGTTCCAAACCGCCACAAGCTGGGGAGCTTATACAACAGAAACCCACTCTCCGTCCTGGAGCTGGAAGTCTGAGATCCAGGCGGGCAGGGGATAGACTCCCTGCTGAGGGTCTGGGGAGGTCCTTCCTGCCTCTCCCAGCTTTGGGGACTCCAGGTGTCCTTTGGCTGTGGCTGCATCCCTCCGATCTCTGCCTCTGCCTCTCTGTGGCCTCCCCTCTCTGTGTCTGTGTCTCTTCTGTCTCCCGTAAGGACACTGGTCATTGGATTGAGGGCCCACCCAGCTAGTCCACGATGATGTCATTTCAAGATGCTTCCCTTAATCCCATCTGCAAAGACACTTTCTCCCGGCAAAGCCACATGCGGAGGTTCTGGGATAGCCATAGATTTTGGGGGACCCCATTCTACACACTGGACCCATTTTTATAGACGAGGCAGCTGAGGCCCCAGGGGCTTCAGTGGCTCCCCAAGGCGGCAGTCACAGTGGTGACGCTGGCTGCCATGACGCCTGGGGAGCGAGGGCACCACCACGGAGCCTGCCAGCCCGTCCATCTCTGTCCCGCAG
Seq C2 exon
GCATCTGCAGCATGTGGGGCGGCTCCCACTATTCCACCTTTGACGGCACCTCTTACACCTTCCGGGGCAACTGCACCTATGTCCTCATGAGAGAGATCCATGCACGCTTTGGGAATCTCAGCCTCTACCTGGACAACCACTACTGCACGGCCTCTGCCACTGCCGCTGCCGCCCGCTGCCCCCGCGCCCTCAGCATCCACTACAAGTCCATGGATATCGTCCTCACTGTCACCATGGTGCATGGGAAGGAGGAGGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117983-MUC5B:NM_002458:33
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0009420=VWD=PU(51.2=96.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGGCCAACGTCACCTG
R:
CTCCTCCTTCCCATGCACCAT
Band lengths:
344-1455
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)