MmuINT0084170 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:116006461-116007174:+
Coord C1 exon
chr11:116006461-116006610
Coord A exon
chr11:116006611-116006985
Coord C2 exon
chr11:116006986-116007174
Length
375 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CTATCCTCACTCCACCTCAGGCG
3' ss Score
5.96
Exon sequences
Seq C1 exon
ATTCCCGTGGGGCTGTGGGTGTGCCTGACACACCCACTCGGCTGGTGTTCTCTGCCCTGGGGCCCACGTCTTTGAAGGTGAGCTGGCAGGAGCCACAGTGTGATCGGATGCTGCTGGGCTACAGTGTGGAATACCAGCTACTAAACGGCG
Seq A exon
GTGAGGCATAGTGACTGTTGGCTGTCATGTCTTGTCTCAGTTGGGCCAGGACCCCTCCAAATCAGTTGCGGCTTCATCCACTCCCCTGGGCCTTTACTATCCATTTCTTAAACGAGGTTTTACTTAATGGGGCTTTGTAGACCTAGGGCCTCTGCTAACTGGAATAGCCTTGTAAGAACAGGGAAACGGCAGAAGAGGGCAGGCTTTGCCCGGAACCCCCCAGTGGGACTTCTTACATGTTAAGTAAAGGCTCTACCAGCAACCCACCATAGTACACTGTACCAAACCTGAGGTGTTGATGGCGGCCGAACAGGAGGGAGGGATAAGAAGGGCGAGAGTTAAGGTGGTCTGTTTCCTATCCTCACTCCACCTCAG
Seq C2 exon
GCGAGATGCATCGGCTCAACATCCCTAACCCTGGCCAAACCTCGGTGGTGGTAGAGGATCTCCTGCCTAACCACTCCTATGTGTTCCGGGTACGGGCCCAGAGCCAGGAGGGCTGGGGCCGAGAGCGAGAGGGTGTCATCACCATCGAGTCCCAGGTGCACCCGCAGAGCCCTCTCTGCCCCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.151 A=NA C2=0.312
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(48.8=80.4)
A:
NA
C2:
PF0004116=fn3=PD(50.0=65.6)
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:
ATTCCCGTGGGGCTGTGG
R:
AGGGGGCAGAGAGGGCTC
Band lengths:
334-709
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