MmuINT0102407 @ mm9
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:148984769-148985221:+
Coord C1 exon
chr7:148984769-148985024
Coord A exon
chr7:148985025-148985168
Coord C2 exon
chr7:148985169-148985221
Length
144 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CTAAAACCCTCTACTTTCAGCAC
3' ss Score
5.9
Exon sequences
Seq C1 exon
CAAAGCCTACAATTACCTGTCCCAAGTCAATGACCTATCAATACCATATCAGCACCTGCCAGCCCACCTGCCGTGCTCTGAATGAGAAAGATGTCACCTGCCATGTCAGCTTCATCCCTGTAGATGGCTGCACCTGCCCCAAAGGCACCTTCTTAGATGATTTGGGCAAATGTGTACAGGCTACCAGCTGTCCTTGCTACTACAAGGGATCCACAGTTCCCAATGGCGAGTCTGTGCAGGACAGTGGGGCCATTTG
Seq A exon
GTAAGACCCTTAGGCCTGGCAGACTGTTCCCAGAGGACCCTTGTCACCCTGCTCCCTTGTACCTATAGTCATGCAAACAAGGAGGACATGGTGGGGATTCACAGGGCCCAGATTAGATGTTATTCTAAAACCCTCTACTTTCAG
Seq C2 exon
CACCTGCACCCAAGGAGCACTAACTTGTATTGGAGGTCCTGCCCCGACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974-Muc5ac:NM_010844:18
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:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=67.4)
A:
NA
C2:
NO
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:
CATATCAGCACCTGCCAGCC
R:
GGGCAGGACCTCCAATACAAG
Band lengths:
256-400
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: