MmuINT0102486 @ mm9
Intron Retention
Gene
ENSMUSG00000066108 | Muc5b
Description
mucin 5, subtype B, tracheobronchial [Source:MGI Symbol;Acc:MGI:1921430]
Coordinates
chr7:149056590-149056898:+
Coord C1 exon
chr7:149056590-149056676
Coord A exon
chr7:149056677-149056775
Coord C2 exon
chr7:149056776-149056898
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
CTGTGTGATTTGCTTTCCAGCCC
3' ss Score
8.61
Exon sequences
Seq C1 exon
GGCTTCAAGTACACGCTGGTGCCAGAGCAGTGCTGCGGGGAGTGCCTGCAAAATGCCTGCCTCACACCAGAGGGCCACGCGGTACAG
Seq A exon
GTAATAGGAGAGGGTGGAAGGAGACCTACCCTTGAGCAGGCCTCAGCCACAAGTGGATCGATTGCTGCCTGGACCTCTACTGTGTGATTTGCTTTCCAG
Seq C2 exon
CCCAATGAAACCTGGGTGAACAGTCCTGTGGACAACTGCACTGCATACCACTGTATGGCTGAGAATGGAGTCTATGTGCTGACCCCAATCCCCACATCTTGCCCTGATGTATCCAACTGTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066108-Muc5b:NM_028801:45
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=0.024
Domain overlap (PFAM):
C1:
PF0009313=VWC=PD(22.6=48.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTTCAAGTACACGCTGGT
R:
GGGGTCAGCACATAGACTCCA
Band lengths:
173-272
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: