MmuINT1023728 @ mm10
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:141793596-141794039:+
Coord C1 exon
chr7:141793596-141793713
Coord A exon
chr7:141793714-141793900
Coord C2 exon
chr7:141793901-141794039
Length
187 bp
Sequences
Splice sites
5' ss Seq
GTGGTACGT
5' ss Score
8.61
3' ss Seq
CTTCTTCTTCCTACCTGTAGCAC
3' ss Score
9.76
Exon sequences
Seq C1 exon
GTATGGTGCTTGATGACATTAATCAGATGGGCTGTGTTCCTGTGTCCCAGTGTGCCTGCCTGTACAATGGGACACTTTATGCACCGGGTACCAATTACTCTACTGACTGCACCAAGTG
Seq A exon
GTACGTTTTGGGTTCCCATCGAAGACTTTGACAGATACTGTCTTCCACAGGATTTGTAGACTTGTTAGGTCCCAGGCTGCTGTGGCCAGTGCCCTATGGGCAAGAGCTTTCAGTTTGGTGGCAAAAATGGCAGGAGTGTTGTCCCTGGGACTAGTATACAATATGTCCTTCTTCTTCCTACCTGTAG
Seq C2 exon
CACATGTTCTGGAGGGCAGTGGAGCTGCCAGGACATCCCCTGCGCTGGCACCTGCTCAGTAATGGGAGGCTCCCACATGTCCACATTTGATGGAAGGCAGTACACAGTACATGGGGACTGCACCTATGTGCTGAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974:ENSMUST00000155534:10
Average complexity
IR
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=PD(29.8=42.5),PF0009313=VWC=PU(31.7=50.0)
A:
NA
C2:
PF0009313=VWC=PD(66.7=89.4),PF0009420=VWD=PU(18.1=59.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTTGATGACATTAATCAGATGGG
R:
ACATAGGTGCAGTCCCCATGT
Band lengths:
242-429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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