MmuINT0102480 @ mm10
Intron Retention
Gene
ENSMUSG00000066108 | Muc5b
Description
mucin 5, subtype B, tracheobronchial [Source:MGI Symbol;Acc:MGI:1921430]
Coordinates
chr7:141842220-141842740:+
Coord C1 exon
chr7:141842220-141842481
Coord A exon
chr7:141842482-141842625
Coord C2 exon
chr7:141842626-141842740
Length
144 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
GACCGGAGCTTTCTGCACAGGGA
3' ss Score
3.42
Exon sequences
Seq C1 exon
CCTTACACCTGGCACACAATGGGAGAGTGTGCAGCACGTGGGGTGACTTCCATTACAAGACCTTTGATGGTGACGTGTTCCGCTTCCCTGGCCTCTGTAACTATGTCTTCTCTTCACACTGCGGGGCCACCTACGAGGACTTCAACATCCAACTGCGTCGTGGTCTTGAGGGTTCCAGGCCCACAGTCACCTATGTGCTCCTCAGGGCCCAGGGGCTGGTGATTGAGCTGTCCAATGGCTCTGTCCTGGTGAATGGACATCG
Seq A exon
GTGAGCTGAGCCTTGGGGATGAGGGCATTGGGCCTGGCCTTTAGAACTCAATCTGTCCCCTCTGGGGAGGGATCAGGATCGAGTGCATGGGGAGGACAGCCCCTGCCTGTGCCTGCTGAAGGAAGACCGGAGCTTTCTGCACAG
Seq C2 exon
GGAGAAGCTGCCCTACAGTCGTGCAGGTCTCCTGATGGAGAAGAGCAGTGGCTATGTGAAAATCAGCATCCGCCTAGTCCTCACCTTCCTGTGGAATGAAGAAGACAGCGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066108:ENSMUST00000165147:4
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:
PF0009420=VWD=PU(51.7=87.5)
A:
NA
C2:
PF0009420=VWD=FE(25.5=100)
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:
GTCTTCTCTTCACACTGCGGG
R:
GAAGGTGAGGACTAGGCGGAT
Band lengths:
246-390
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