MmuINT0084171 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:116006986-116007414:+
Coord C1 exon
chr11:116006986-116007174
Coord A exon
chr11:116007175-116007258
Coord C2 exon
chr11:116007259-116007414
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCTCCCTCTGCTGCCTCCAGGCT
3' ss Score
9.12
Exon sequences
Seq C1 exon
GCGAGATGCATCGGCTCAACATCCCTAACCCTGGCCAAACCTCGGTGGTGGTAGAGGATCTCCTGCCTAACCACTCCTATGTGTTCCGGGTACGGGCCCAGAGCCAGGAGGGCTGGGGCCGAGAGCGAGAGGGTGTCATCACCATCGAGTCCCAGGTGCACCCGCAGAGCCCTCTCTGCCCCCTGCCAG
Seq A exon
GTGAGCCAGTCTGCCCCCTGCTGCTGCCCCACTCCCCATCCACCAACGACCCGTCCACTGACACTCTCCCTCTGCTGCCTCCAG
Seq C2 exon
GCTCAGCCTTCACTCTGAGCACCCCCAGCGCCCCGGGACCGCTGGTGTTCACTGCCCTAAGCCCAGACTCCCTGCAGCTCAGCTGGGAGCGGCCGAGGAGGCCCAATGGAGATATCCTTGGCTACCTGGTGACCTGTGAGATGGCCCAAGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:37
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.312 A=NA C2=0.189
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=65.6)
A:
NA
C2:
PF0004116=fn3=PU(49.4=81.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCATCACCATCGAGTCCCA
R:
TATCTCCATTGGGCCTCCTCG
Band lengths:
170-254
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