MmuINT0102417 @ mm10
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:141804286-141804828:+
Coord C1 exon
chr7:141804286-141804414
Coord A exon
chr7:141804415-141804674
Coord C2 exon
chr7:141804675-141804828
Length
260 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAC
5' ss Score
7.07
3' ss Seq
ACAGGTCTCTTGGTCCACAGGAT
3' ss Score
8.07
Exon sequences
Seq C1 exon
CACTGTTCTGTGACTACTACAACCCAGAGGGTCAGTGTGAGTGGCACTACCAGCCGTGTGGGGCCCCCTGCATGCGTACCTGCCAGAACCCTACTGGACAGTGCCTACAAGATCTCCGTGGTCTGGAAG
Seq A exon
GTAGACTGAAGGCTGAACTGGGAGGGGCAGGATCTGTTGGGTTCCTAGGATCAGAACTTTGGACAATCCTGGGATCTACGGCCTGGGGTCTATCCTGGGATTGGAGGCCTGGGGTCTTTTTATTCTTCCTGATCCCACTAGGAGCCTTTATGGTTTCAACCATGTTGTGATTGAGGCTGGTCCCAGGGGACAGACCTGGGCCATGGAATGAGAGGACTCTGGGAAGACTCTGTCTGGAACACAGGTCTCTTGGTCCACAG
Seq C2 exon
GATGCTATCCCAAGTGCCCACCAACAGCCCCCATCTTTGATGAGGGCACAATGCAGTGTGTATCCAACTGTACAGTCACCTTCCCCTGCCGCGTCAATGGAAAGTTGTACCGGCCAGGTGCATCAGTACCTTCAGACAAAAACTGCGATTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974:ENSMUST00000155534:27
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:
PF087426=C8=PD(0.1=0.0)
A:
NA
C2:
PF0009313=VWC=PU(42.3=42.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGTGACTACTACAACCCAGAGG
R:
CAGGAATCGCAGTTTTTGTCTGA
Band lengths:
277-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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