MmuINT0102460 @ mm10
Intron Retention
Gene
ENSMUSG00000066108 | Muc5b
Description
mucin 5, subtype B, tracheobronchial [Source:MGI Symbol;Acc:MGI:1921430]
Coordinates
chr7:141851051-141851637:+
Coord C1 exon
chr7:141851051-141851202
Coord A exon
chr7:141851203-141851498
Coord C2 exon
chr7:141851499-141851637
Length
296 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
AATGGCTTTTCCTTTCTTAGCAC
3' ss Score
7.81
Exon sequences
Seq C1 exon
TTCAGCACACAGTGTGTCTCGGGCTGCGTGTGTCCCTCAGGGCTGGTAGCAGATGGGAATGGGGGCTGTATTGCTGAGGAAGATTGCCCCTGCATACACAATGAGGTCACATATAGACCTGGGGAGATCATCCGGGTAGACTGCAATAACTG
Seq A exon
GTAAGTCTTGGGACCCTCAGAGGGGGTCAAGGGGTATCTACAGGGACACTAGTGTGAGATAGCCTTGCTACTTTAGGGGTCTCAGCATCTGTCTTGGGGCCAAGGTACTCATAGGACCCCATTCTGTGGAGGACTATTTATCTAGCCTTGGGGTGATTGGAAACACACCCACACATGACCAAAGCTTGACGGACACTGAGCTTAATTCCCCAAGTAAAGTGACTTGCTAGCACAGGACCAGGACAGCCAGTCTCAGAGGACAACTCCCTAGTCAGCAATGGCTTTTCCTTTCTTAG
Seq C2 exon
CACCTGTAAGAACCGCCGGTGGGAATGCACCAACAAGCCCTGCATGGGTGCCTGTGTGGCCTACGGGGATGGCCACTTTGTTACCTTTGATGGTGAACGCTACATCTTTGAAGGTAGCTGCGAGTATACCTTGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066108:ENSMUST00000165147:21
Average complexity
IR
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:
PF0182612=TIL=PD(45.2=54.9),PF0009313=VWC=PU(37.0=39.2)
A:
NA
C2:
PF0009313=VWC=PD(61.1=70.2),PF0009420=VWD=PU(18.5=59.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGCACACAGTGTGTCTCG
R:
GAGCCAAGGTATACTCGCAGC
Band lengths:
289-585
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types