MmuINT0102498 @ mm10
Intron Retention
Gene
ENSMUSG00000048191 | Muc6
Description
mucin 6, gastric [Source:MGI Symbol;Acc:MGI:2663233]
Coordinates
chr7:141649176-141649481:-
Coord C1 exon
chr7:141649409-141649481
Coord A exon
chr7:141649314-141649408
Coord C2 exon
chr7:141649176-141649313
Length
95 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
TTAGCCCTGAAATCTTGCAGACA
3' ss Score
5.02
Exon sequences
Seq C1 exon
GACAAAATTGTCATCTCAGAAGATGAAGTGATCACCAACAACGGGGACACCAAATTGCTGCCATACAAGACAC
Seq A exon
GTAAGTCCTTCTGGGGCCAGCACTGGGAACCCTGTGTTACCACATCTTTGGGGCATGGCAGCAGGGACAGCCTTCTTAGCCCTGAAATCTTGCAG
Seq C2 exon
ACAACATCACCATCTTCAGGCAGACATCCACCCACCTCCAGATGGCTACCACCTTCGGGCTGGAACTTGTGTTCCAGATGCAGCCTGTCTTCCAGGTGTACATTACAGTCGGGCCCCAGTTCAAAGGCCAGACCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048191:ENSMUST00000189314:12
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=FE(15.6=100)
A:
NA
C2:
PF0009420=VWD=FE(29.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAACAACGGGGACACCAAAT
R:
CTGGTCTGGCCTTTGAACTGG
Band lengths:
175-270
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