MmuINT0102416 @ mm9
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:148989217-148990319:+
Coord C1 exon
chr7:148989217-148989373
Coord A exon
chr7:148989374-148990190
Coord C2 exon
chr7:148990191-148990319
Length
817 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
TAACTCTTTCCATTTTCCAGCAC
3' ss Score
7.84
Exon sequences
Seq C1 exon
GTGGAGCCGGCCAAGTACTATGAAGCTTGTGTGAATGACGCCTGTGCCTGTGACTCAGGGGGTGACTGCGAGTGTTTCTGCACCACTGTGGCCGCCTATGCCCAGGCCTGCCATGAAGTGGGAGTGTGTGTGTCCTGGAGGACACCAGACATCTGCC
Seq A exon
GTGAGTGGGGCTTTGTCTGTGTTGCTGAAGGGTGGGGCTGGGGGGTGAGGTGGGTGGCATCCTTCTGCTCCTTCTGACTTGGTTCTGGCCAGTGTGTGTGCACGTGCATGCGAGCACACACACACACACACACACACTGAGGGGAAAGAGTGACATTACCAGCCCTGTGGGCCCCCCTGCATGCACACCTGCCAGAACCCAAGTGGCTTGAGCTTTAGCTAGGAGGGAGAACACTGCTGCCTTAGGCACATCTCCAAGGGAAGGCACCCTTAGCTTGAGGCTGGGCTGGGAGGGAGGGCACCACTGTGCATGCACATGCGTGTGTGAACAAGCATGTATTGCACATGCAAGTGCACAAACACTGTGACCACTCAACAGGTGGCTCTAATATGAGCAGCTCCAAGGGCTGGGAACTGCTAGGACTAGGCTATGATATCTGCTGTAGACAAGGTTCCAGGTAGGCGAGGCCAGCTCTGTATACACATCAGAATGCATTGAAGGGTTAATAGTTTCCTGAAGAAAGTGAAACAGAAATGAGGGTGAGCAGCTAGAGGAGGAAGCCTGGCCTCAGAAAACCTTCTGCACTGGAGGCATCAATACTCCTTCTTAAGCACAGTCCATGTGAAGCCCCGAGGGCGTGGTGTGGCTGAGGGCAGCTGCTGTACCTGGAGAGCCCCGTTTGATGGTTTCTGCTCTGGCACTCCCATTAGGCAGAAACCTTTATCTGACTTACCCTTTCTTGGGGTGGGGTGGGGTGGGAAATGATTTAGCAGACCCTAGGCTCAGGCTTATTCCAGTAACTCTTTCCATTTTCCAG
Seq C2 exon
CACTGTTCTGTGACTACTACAACCCAGAGGGTCAGTGTGAGTGGCACTACCAGCCGTGTGGGGCCCCCTGCATGCGTACCTGCCAGAACCCTACTGGACAGTGCCTACAAGATCTCCGTGGTCTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974-Muc5ac:NM_010844:26
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=FE(69.3=100)
A:
NA
C2:
PF087426=C8=PD(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:
GTGGAGCCGGCCAAGTACTAT
R:
CTTCCAGACCACGGAGATCTTG
Band lengths:
286-1103
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: