MmuINT0102507 @ mm9
Intron Retention
Gene
ENSMUSG00000048191 | Muc6
Description
mucin 6, gastric [Source:MGI Symbol;Acc:MGI:2663233]
Coordinates
chr7:148832545-148832992:-
Coord C1 exon
chr7:148832841-148832992
Coord A exon
chr7:148832687-148832840
Coord C2 exon
chr7:148832545-148832686
Length
154 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
CCTTACTTCCATCTCCCCAGCAC
3' ss Score
7.83
Exon sequences
Seq C1 exon
GTACCCACCAAGTGTGAGTCCGGCTGCGTCTGTCCTAAGGGGCTCTATGAGAACAGCGACGGGCAGTGTGTGCCTGCAGAGGAATGCCCATGTGACTATGCAGGGGTGTCCTACCCTGGTGGTTTTGAGCTCCACACAGACTGTAAGACATG
Seq A exon
GTAGGTCATGAACACCAAGACCCCTAGGGCTATCTGGGCAGGCAAAGATGCCCAAAAGGAAGTTGTCCCAGAGTAGGACTCCCAGAAGTGGGGAATCCTAGGATCACAGCCCAGTCCGTCTCCCTCTAACGGCTCCTTACTTCCATCTCCCCAG
Seq C2 exon
CACCTGCTCACAGGGAAGGTGGACCTGCCAGCTTAGCACACAATGTCCATCCACCTGTGTCCTCTATGGCGAAGGCCACATCATAACTTTTGATGGACAACGCTTTGTGTTTGACGGCGACTGCGAATACATGCTGGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048191-Muc6:NM_181729:20
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=0.000
Domain overlap (PFAM):
C1:
PF0182612=TIL=PD(43.8=54.9),PF0009313=VWC=PU(32.3=39.2)
A:
NA
C2:
PF0009313=VWC=PD(66.1=85.4),PF0009420=VWD=PU(18.4=58.3)
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:
GGCTCTATGAGAACAGCGACG
R:
GTATTCGCAGTCGCCGTCAAA
Band lengths:
242-396
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: