MmuINT0102521 @ mm10
Intron Retention
Gene
ENSMUSG00000048191 | Muc6
Description
mucin 6, gastric [Source:MGI Symbol;Acc:MGI:2663233]
Coordinates
chr7:141633456-141634542:-
Coord C1 exon
chr7:141634440-141634542
Coord A exon
chr7:141634227-141634439
Coord C2 exon
chr7:141633456-141634226
Length
213 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGGTCTCTGCTTCTTGGCAGTTT
3' ss Score
7.33
Exon sequences
Seq C1 exon
GGACCTGCAGCTTACAGGAGGAAGAGCACCAGATTACTTACCAGGGCTGTGTGGCCAATGTGACTCTAACTCGTTGCCAGGGTTTCTGCGCCTCCTCTGTCAG
Seq A exon
GTGAGTTGCTGGCAAACACCCTCCTTTCTGCTGCGGCCAGAAGCCTCATAGGAGCTGGGCTCTCAATGTTTCCCATGCCTGCTCTGACTGACAGGTCTAGGCAGGTCACTCTGGCCACACTTGCCTTGCCCATGAGCAGGTGCTGGTTCAGGGGGCCGGGCCTTGGGGGTAGGGGGTGGATTCCTGACCTTGCTGGTCTCTGCTTCTTGGCAG
Seq C2 exon
TTTCAATAAGGACACCCTGCAGTTGGAGTCCAGCTGTGGCTGCTGTCAGCCCCTGAGTACCTACAAGAAGCAACTCTCACTGCCCTGCCCAGATCCCGATGCGCCAGGGCAGCAGCTCACACTCACCCTCCAAGTGTTCAGCAGCTGTGTATGCAGCCCCCTGCAGTGCAAGAACTGAACAGCAGCAACTGGTTTCTGGGTACCAGAAAATGCCATTCACGATACGGCCCTAACACCTGTAACTCGCAATCCCTTTACTGGCCATGGGCATGGCCTCAAAAAGACATCACCCGTGTTTCACCCTGAGCCAGCTGCAGAGAAAGAGCTGTCAGTGCAGGGCACCCCACCACTATCTCCTGCACAACCTGAGCAAGCACAACAGGTCTTTGGTGGAAATAAACTGACATCCCTTCCATCTGGATGCACCGGGGATCTTCTGTCTACCTGCACAGCACCTCCCAGCCTTGGGCTACATCACCCAGGAGAGCAGAACACAGAAGCAGATGCTAAGACTGGGCAGGGCACATGGGGAGGTGTGGAGAATAGCAGGAGGAAGATGCAGGGGCATGAGCCCTGGGGGGCGTGCGGGGGGGGGGGGGGGGGGGCGACGGACGGACAGGGACACAAGCAGCAAGGTAAGCACTGCAGAGACACAAGGAAAGGTCTCCTCAGACACAGGAGGGAAAAAAAGGCATTGGTATTCACTGGACAGGAGGCTGTCACCCAACAATGAGCAGATTGCAAATAAAACTGGTTCTTTTCAAGGCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048191:ENSMUST00000189314:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTCGTTGCCAGGGTTTCTG
R:
ATGGCCAGTAAAGGGATTGCG
Band lengths:
301-514
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