MmuINT0084163 @ mm10
Intron Retention
Gene
ENSMUSG00000020758 | Itgb4
Description
integrin beta 4 [Source:MGI Symbol;Acc:MGI:96613]
Coordinates
chr11:115999798-116000419:+
Coord C1 exon
chr11:115999798-115999955
Coord A exon
chr11:115999956-116000238
Coord C2 exon
chr11:116000239-116000419
Length
283 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CACTGAACACCCACTCACAGGTG
3' ss Score
5.11
Exon sequences
Seq C1 exon
ATGAAACGGACAGGAGTCTCATAAATCAAACACTTTCATCGCCTCCGCCACCCCATGGAGACCTGGGCGCCCCACAGAACCCCAATGCCAAGGCTGCCGGGTCCAGGAAGATCCATTTCAACTGGCTGCCCCCTCCTGGCAAGCCAATGGGGTACAGG
Seq A exon
GTAAGGTGAGGGGCACTGGGGAGGGCTGTCACTCACCTTCTAGTGAGTGGACTGCCCCAGGGGAGGGGGAGGACAGGCGTGGTACCAGTGGGCCGATAAAACCCCATCTGCAACCCTGCAAGCGGGAAGACCCATTCCTAAGTTCAGCTTCATTCCTGCAATGGGGTCCTTGTCCAGCCTGGGAGATCCACTGCTCTGCCCGAGCTTTGCTGAGAGCCACCAATGTCACTTGTACAAAGGGAGTCCTAGCGCTTGCTGCTTCCCACTGAACACCCACTCACAG
Seq C2 exon
GTGAAGTACTGGATCCAGGGCGACTCTGAGTCTGAAGCCCACCTTCTAGACAGCAAGGTGCCCTCAGTGGAACTCACCAACCTGTATCCCTATTGCGACTACGAAATGAAGGTGTGTGCCTATGGGGCACAGGGTGAGGGGCCCTATAGCTCACTGGTGTCCTGCCGCACCCACCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020758:ENSMUST00000021107:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.623 A=NA C2=0.183
Domain overlap (PFAM):
C1:
PF0004116=fn3=PU(37.0=56.6)
A:
NA
C2:
PF0004116=fn3=PD(60.5=80.3)
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:
CAAACACTTTCATCGCCTCCG
R:
ACACCAGTGAGCTATAGGGCC
Band lengths:
292-575
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