MmuINT0102474 @ mm9
Intron Retention
Gene
ENSMUSG00000066108 | Muc5b
Description
mucin 5, subtype B, tracheobronchial [Source:MGI Symbol;Acc:MGI:1921430]
Coordinates
chr7:149052661-149053379:+
Coord C1 exon
chr7:149052661-149052917
Coord A exon
chr7:149052918-149053192
Coord C2 exon
chr7:149053193-149053379
Length
275 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
TTCCCTCTGGACATCCCTAGATT
3' ss Score
6.86
Exon sequences
Seq C1 exon
GCTTCTGCAGTGGATGGGGGCACTCACACTACCTGACCTTCGATGGCACCTCCTATACTTTCCTGGATAACTGTACCTCCGTGCTCATGAGAGAGATCCACCCTCGCCATGGTAACCTGAGCATCCTTGCCCACAGCTACTACTGTGGGGCTACCACAAATGTCACCTCCTGTCCCCGTGCCCTCAGTGTGTACTACAACTCCATGGAGATTATCCTTACCATCAGCACCACTGAGAGCGGGAAGGATGAGAGCCTG
Seq A exon
GTGAGTCTTGTGATAGGTATGGCTCCCATACCACACTGCAAACATGAAGTCTAGATATGGGGTGACATAGACAGAGATGAAAAGCCCCGAGGACCAAGAACATTCTCCCCTCTGCAGAAATGGCCTGTAGGAGCTGGCCTGCGCAAAGAAATGACTCCTAGTTCTAGACTGAGGAAGACAATAGAAATGCCCCTAATGTTTGGGAGGGGGAACTCCCAAAGCAGCGTGCTGCCTAGCTGGCCCTCTGATTATTGGTTCCCTCTGGACATCCCTAG
Seq C2 exon
ATTATATGGGACCAAATGTGGATACGATCAGGCTTCAGTAAGAATGGTGTGACCGTGTCCTTGAGTGGGGCCACCACAATGAGTGTCAACATTTCCACCATTGGCACCATCATCACCTTTGATGGGAACATCTTCCAGATATGGTTGCCCTACAGATATTTCAGCAGCAATACTGAGGGCCAGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066108-Muc5b:NM_028801:34
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:
PF0009420=VWD=PU(50.9=96.5)
A:
NA
C2:
PF0009420=VWD=FE(38.0=100)
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:
CCTCCGTGCTCATGAGAGAGA
R:
GGTGATGATGGTGCCAATGGT
Band lengths:
299-574
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: