MmuINT0102341 @ mm9
Intron Retention
Gene
ENSMUSG00000025515 | Muc2
Description
mucin 2 [Source:MGI Symbol;Acc:MGI:1339364]
Coordinates
chr7:148885091-148885594:+
Coord C1 exon
chr7:148885091-148885237
Coord A exon
chr7:148885238-148885354
Coord C2 exon
chr7:148885355-148885594
Length
117 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TCTTGTCTTTCTTTCTGCAGGGC
3' ss Score
12.32
Exon sequences
Seq C1 exon
GTGGTAAAACAGTTGGAAGAGGGCCACCATGTGCCCTATATCACACGGGAAGTGGGTCAGTACCTAGTGGTGGAAGCCAGCTCCGGCATCATCGTTATCTGGGACAAGAAAACTACCATCTTCATCAAGCTGGACCCCTCTTACAAG
Seq A exon
GTAGGCCACCAAGATGGCAGCTGTGCCTTGGGCTGCCCCTACACAGGTCCCGTGGATGCTACTCTCCCTTTCCTCAGGATCTTCCCAAGCTGGAGACTCTTGTCTTTCTTTCTGCAG
Seq C2 exon
GGCACTGTATGTGGTCTGTGTGGGAACTTTGATGACCAGACCAAAAATGACTTCACCACTCGGGACCACATGGTGGTGACCAGCGAGCTGGACTTTGGGAATAGCTGGAAGGAGGCTTCCACTTGCCCAGATGTAAGCCACAACCCAGACCCCTGCAGCTTGAACCCACATCGCCGCTCCTGGGCAGAGAAGCAGTGCAGCATTATCAAGAGTCGTGTGTTTAAAGTGTGCCACAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025515-Muc2:NM_023566:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(33.1=100)
A:
NA
C2:
PF0009420=VWD=PD(15.5=28.8),PF087426=C8=PU(28.0=26.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGGAAGTGGGTCAGTACCTA
R:
GGGTTGTGGCTTACATCTGGG
Band lengths:
248-365
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: