MmuINT0084152 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:115989722-115990044:+
Coord C1 exon
chr11:115989722-115989841
Coord A exon
chr11:115989842-115989937
Coord C2 exon
chr11:115989938-115990044
Length
96 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTTCTCATCTCACCCTGCAGACT
3' ss Score
10.01
Exon sequences
Seq C1 exon
AAGAGGTGGTGGAGTACTGCTCCTTCCGGGATGAGGATGACGACTGCACTTACAGCTACAACGTGGAGGGCGATGGCAGCCCTGGGCCCAACAGCACAGTCCTGGTCCACAAAAAGAAAG
Seq A exon
GTGAGCGGGCAGATGGGCGTGCGCAGCCTGTGGCCCCTGACAGCCCCGGGGCGGGGCGGGCATGCGCACTGCCTGTCTTCTCATCTCACCCTGCAG
Seq C2 exon
ACTGCCCTCCCGGCTCCTTCTGGTGGCTCATCCCCCTGCTCATCTTCCTCCTGTTGCTCCTGGCGTTGCTTCTGCTGCTCTGCTGGAAATACTGTGCCTGCTGCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF079657=Integrin_B_tail=PD(7.0=16.7)
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:
AGAGGTGGTGGAGTACTGCTC
R:
GAGGAAGATGAGCAGGGGGAT
Band lengths:
169-265
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