MmuINT0102406 @ mm10
Intron Retention
Gene
ENSMUSG00000037974 | Muc5ac
Description
mucin 5, subtypes A and C, tracheobronchial/gastric [Source:MGI Symbol;Acc:MGI:104697]
Coordinates
chr7:141798468-141799119:+
Coord C1 exon
chr7:141798468-141798594
Coord A exon
chr7:141798595-141798863
Coord C2 exon
chr7:141798864-141799119
Length
269 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
TTCATTCTGTTCTCACACAGCAA
3' ss Score
7.57
Exon sequences
Seq C1 exon
AACTGCATGTATGACACGTGCAACTGTGAGAAGAGCGAGGACTGCATGTGTGCAGCCCTGTCCTCCTATGTGCGTGCTTGTGCTGCCAAAGGCGTGCTGCTCAGTGACTGGAGGGATGGCATCTGCA
Seq A exon
GTGAGTGTTCTGTGGGCAAACAACTCTCTTTCTGTACAGGTCAGGGTCCCTATCCTTTGCCTAGTAGCTGATTGGATGCTCCAAGGATCTTATTCCTACATCAGTCTCTGAAACTAAGGGAGAACCAAGCCATTGTGACCAAGAGAACTAATGGGGAAACAGTGTCTGGGGGAGCTGAAAAGGCTTCAAACTGCTAGGTCCTCTTGTTATGATTACTGGGCTATGTGTCCACCAATGTTCTAATGTCTCTTCATTCTGTTCTCACACAG
Seq C2 exon
CAAAGCCTACAATTACCTGTCCCAAGTCAATGACCTATCAATACCATATCAGCACCTGCCAGCCCACCTGCCGTGCTCTGAATGAGAAAGATGTCACCTGCCATGTCAGCTTCATCCCTGTAGATGGCTGCACCTGCCCCAAAGGCACCTTCTTAGATGATTTGGGCAAATGTGTACAGGCTACCAGCTGTCCTTGCTACTACAAGGGATCCACAGTTCCCAATGGCGAGTCTGTGCAGGACAGTGGGGCCATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037974:ENSMUST00000155534:17
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=FE(56.0=100)
A:
NA
C2:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=67.4)
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:
GTGCAACTGTGAGAAGAGCGA
R:
ACAGCTGGTAGCCTGTACACA
Band lengths:
301-570
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