MmuINT0102475 @ mm9
Intron Retention
Gene
ENSMUSG00000066108 | Muc5b
Description
mucin 5, subtype B, tracheobronchial [Source:MGI Symbol;Acc:MGI:1921430]
Coordinates
chr7:149053193-149053707:+
Coord C1 exon
chr7:149053193-149053379
Coord A exon
chr7:149053380-149053481
Coord C2 exon
chr7:149053482-149053707
Length
102 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
ATCCCTGCCTTACTCACCAGGTA
3' ss Score
9.2
Exon sequences
Seq C1 exon
ATTATATGGGACCAAATGTGGATACGATCAGGCTTCAGTAAGAATGGTGTGACCGTGTCCTTGAGTGGGGCCACCACAATGAGTGTCAACATTTCCACCATTGGCACCATCATCACCTTTGATGGGAACATCTTCCAGATATGGTTGCCCTACAGATATTTCAGCAGCAATACTGAGGGCCAGTGTG
Seq A exon
GTGAGTAGTCACGACCTGGATCATTATGGTTCTGTAAGTGGGGGAAGAAACAGGTCTATGGGAAACAGCGGAAGCTGATGTAATCCCTGCCTTACTCACCAG
Seq C2 exon
GTACCTGCACAAACAGCCAGATAGACGACTGCCGCCGGCCTGATGGCACCATAGCTTCTGACTGCCAGGACATGGCCAAAGAATGGCTGGTGCCTGGGAACAGTAGCAGCAGCTGCTTAGCTCAGCCTAGCCCTCTCCCGAGCACCACTCCCCAGACCCCAGTGTCCAGCACACTGACCTCCACCCCATGCCCCTCTGCACCTCTCTGTGAGCTGATGCTGAGCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000066108-Muc5b:NM_028801:35
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=0.118
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(38.0=100)
A:
NA
C2:
PF0009420=VWD=PD(9.8=21.1),PF087426=C8=PU(17.6=17.1)
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:
GTGTGACCGTGTCCTTGAGTG
R:
GCTGCTGCTACTGTTCCCAG
Band lengths:
254-356
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: