MmuINT0102419 @ mm9
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:148991361-148991703:+
Coord C1 exon
chr7:148991361-148991404
Coord A exon
chr7:148991405-148991517
Coord C2 exon
chr7:148991518-148991703
Length
113 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
TAAACATCTATTCCCCACAGCCT
3' ss Score
7.7
Exon sequences
Seq C1 exon
CATCTGCACGGAGAGTGGTGTGCGCTGTACCCACAATGCTGGTG
Seq A exon
GTGAGCTCCTGCAGCTCCCTCTGAGCTGGAGATGGGGTGGTGTGTGGGCAGGTGGGGCATTCGTTGCCAGAACTTTAGCACACTCTGACAGGCTAAACATCTATTCCCCACAG
Seq C2 exon
CCTGTGTCTGTACCTACAACGGGCAACAGTTCCATCCTGGGGAGATCATCTACCACACAACAGATGGCATAGGAGGCTGCATCTCTGCACACTGCAGGGCCAATGGTACCATCGAGAGGAGCGTTGACACCTGCAACTCCACCACCCCTACACCCCCCACCACTTTCTCCTTCTCCACACCGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974-Muc5ac:NM_010844:29
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=0.238
Domain overlap (PFAM):
C1:
PF0009313=VWC=FE(28.8=100)
A:
NA
C2:
PF0009313=VWC=PD(26.9=22.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAGTGGTGTGCGCTGTA
R:
GCGGTGTGGAGAAGGAGAAAG
Band lengths:
218-331
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: