MmuINT0102508 @ mm10
Intron Retention
Gene
ENSMUSG00000048191 | Muc6
Description
mucin 6, gastric [Source:MGI Symbol;Acc:MGI:2663233]
Coordinates
chr7:141646450-141646787:-
Coord C1 exon
chr7:141646646-141646787
Coord A exon
chr7:141646561-141646645
Coord C2 exon
chr7:141646450-141646560
Length
85 bp
Sequences
Splice sites
5' ss Seq
ACGGTAACC
5' ss Score
6.62
3' ss Seq
TCAACTCCCTTTCCCTGCAGGAT
3' ss Score
12.15
Exon sequences
Seq C1 exon
CACCTGCTCACAGGGAAGGTGGACCTGCCAGCTTAGCACACAATGTCCATCCACCTGTGTCCTCTATGGCGAAGGCCACATCATAACTTTTGATGGACAACGCTTTGTGTTTGACGGCGACTGCGAATACATGCTGGCCACG
Seq A exon
GTAACCACTGAGCCCAGAGCCAAAGGCTGAACAAAACCTGAGGGGGGGGCCACGAGGGCTTCTCCTCAACTCCCTTTCCCTGCAG
Seq C2 exon
GATGACTGTGGGGCCAACAGCTCACAGCCTACCTTCAAGGTCCTGACAGAGAATGTCATCTGTGGGAAGTCCGGAGTCACCTGCTCCAGAGCCATCAAGATTTCCCTGGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048191:ENSMUST00000189314:21
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:
PF0009420=VWD=PU(18.4=58.3)
A:
NA
C2:
PF0009420=VWD=FE(23.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGTGTCCTCTATGGCGAA
R:
GACTCCGGACTTCCCACAGAT
Band lengths:
168-253
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