MmuINT0102403 @ mm9
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:148981906-148982290:+
Coord C1 exon
chr7:148981906-148982043
Coord A exon
chr7:148982044-148982125
Coord C2 exon
chr7:148982126-148982290
Length
82 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGA
5' ss Score
8.24
3' ss Seq
TGCTCTTCTGCTCCCCCCAGGGC
3' ss Score
11.13
Exon sequences
Seq C1 exon
CCAATGCTACCTTCTTCCGGCCTTCAACCTTCTTCATCGTTGGTGAGACCAACCTGGGTTTGCAGCTTGAGATCCAGCTGAGTCCAATTATGCAAACATCTGTGCGTCTGAAACCTGGGCTCAGGGGGCTAACCTGTG
Seq A exon
GTAAGAAGCACTGACTCTGGGTCTGAGCCATTCCATTTTAGAGCTCACATGAGGCTTCAACCTGCTCTTCTGCTCCCCCCAG
Seq C2 exon
GGCTCTGTGGTAACTTCAACAGTATGCAGGCTGATGACTTCCAGACTATCAGTGGGGTTGTGGAGGGCACAGCAGCTGCTTTCTTCAACACCTTCAAGACTCAGGCGGCTTGTCCCAATGTCAAGAATATCTTTCAGGACCCCTGCTCGCTCAGCGTGGAGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974-Muc5ac:NM_010844:14
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:
PF0009420=VWD=FE(29.7=100)
A:
NA
C2:
PF0009420=VWD=PD(12.3=33.9),PF087426=C8=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGCTACCTTCTTCCGGCC
R:
GTCTGGAAGTCATCAGCCTGC
Band lengths:
183-265
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: