MmuINT0102410 @ mm9
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:148985648-148986221:+
Coord C1 exon
chr7:148985648-148985748
Coord A exon
chr7:148985749-148986069
Coord C2 exon
chr7:148986070-148986221
Length
321 bp
Sequences
Splice sites
5' ss Seq
TGTGTAAGT
5' ss Score
7.65
3' ss Seq
CTTGTTCATATTCCCTACAGTAT
3' ss Score
7.41
Exon sequences
Seq C1 exon
TGTGTGATGCACCCATGATCTATTTTGACTGTCACAATGCCACACCTGGTGACACTGGAGCTGGATGTCAGAAGAGCTGTCACACCCTAGACATGACCTGT
Seq A exon
GTAAGTGACCTGGTTACTCCCTAATAGCCCTTCCTAGGACCTTCCTGATGGCCCCCTCACTTCCTTGACCTCTCCTGCTATGGTGTCTATGGAGACCATCAGGCCCCCTCATGGCTGTTCCTGGAGCAGAGCAAAAGGGCTTTCCAATGCTGAGGGCCTTCAGACTATTGTGGCTACACTGTATTCTCAGAACACCTCTGGTCTCCCTGCTGTCAAGCGTCCTGTTCCCATGGTACCCACAGTCCTGCAGACAAAAAGGACATGTCAGCCTCAGAATCCATCCACATCCAGTCCCATTCACCTTGTTCATATTCCCTACAG
Seq C2 exon
TATAGCTCCGAGTGCGTGCCTGGCTGTGTGTGCCCCAATGGGCTGGTGGCAGATGGAAATGGAGGCTGTGTTGTTACTGAGGACTGTCCTTGTGTGCACAATGAGGCCACCTATAGGCCTGGGGAGACCATCCAAGTGGGATGCAACAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974-Muc5ac:NM_010844:20
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:
PF0182612=TIL=PU(51.6=94.1)
A:
NA
C2:
PF0182612=TIL=PD(45.2=54.9),PF0009313=VWC=PU(32.8=39.2),PF053758=Pacifastin_I=PU(37.5=23.5)
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:
GTGTGATGCACCCATGATCTA
R:
CAGTTGTTGCATCCCACTTGG
Band lengths:
252-573
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: