MmuINT0084133 @ mm10
Intron Retention
Gene
ENSMUSG00000020689 | Itgb3
Description
integrin beta 3 [Source:MGI Symbol;Acc:MGI:96612]
Coordinates
chr11:104642184-104644005:+
Coord C1 exon
chr11:104642184-104642318
Coord A exon
chr11:104642319-104643575
Coord C2 exon
chr11:104643576-104644005
Length
1257 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
AATGTCATCTTTCCATTCAGGTG
3' ss Score
10.75
Exon sequences
Seq C1 exon
AAAATCCGCTCTAAAGTGGAGCTGGAAGTACGTGACCTGCCGGAAGAACTGTCACTGTCCTTCAATGCCACCTGCCTCAACAACGAGGTTATCCCGGGCCTCAAGTCTTGTGTGGGCCTCAAGATTGGAGACACG
Seq A exon
GTGAGGTGGGCTAGGGGAGGGACTGATGCTGAGACTCTGACCATGGGCCCCGAGATCTGTGTGCATCCTGACCCTTTCCAGAATTAGGTGTTAGGGTAGTAGGGTTGTCAATCTTTGCCCGTGAAGCTTCGGATGCTTAAGGTTTCTAGAGCTGCCAAGGAAACCTATTATTTATTTTTTCTTAAAATGTCTATTTTGGTTTTCTGTGTTTGCACGTCTGATTGAAAGTGAAAATATCTCTTAACCTATCTCATCACCCAGGGTAATGCTTTTCTTTTCTCTGCCACATAAAATGGGGGCAGTATAGCATCTGTGGACTCTTGCTGAGCACTGGCTGTACCAGGTTTTATTCTGGCTGATGAAAATCCATCAGCAAGTGGAACAGGCAAAAGTTCCTGCCCTGTTGAGACTTAAGAGTGTAAATATTCATCTTGCCCCTCCACCCCCCCCCCACAGCTTTCTTGATTATTACTGGGTTTTTTTTTAATGTGTACGGTTATTTTGCCTGCACGTATATTTGTGTATCACACATGTGGCTGGTACCCGATGAGGCTAGAATTAAGTGTCAGATTCCTTTGAAATAGAGTTACAGATGGTTGCGATCAGCTGTGTGGATTTTAACCCAGGTCATCTTGTTAAGAACAGCCAGTGCTCTTAACCTCTGAGCCATCTCTCCAGTTCCCCTGGTTTTCTTTGCCCGTTCTCCTCTCCTCTACCTGGTCCATGGGAGAGAGGAATGAAAGGAAATAGATCTTCTGGTCCAGTTCCCTATAAGTTTATATTCTAAACTCACGTGTTCACACCACACACACCGCACCCTGCAATAAAATGCTATACAGCAATCTCTCAGTTTGCTATTGACCATTGTATAGCATGGTGTGGTGCAAAGCAACATTTTGTGTGCCTTGCTGTTATTATGTAACAATACTACTTAACTCCAGCTAGCATAGTTGGCCAAAGAAAGTATTCCCCAAATCACAGGTTCTGTCCTGCTTGAGTTGGTTTATTTCTCAGGACAAAACCAGTCCTCTATTGCGTGTCTGTAACTGTCCAGTGAGATATGCCACAGTGGTATTATTGCTGTGTTACGCCAGTGTAGCTTTTACTCTATAGACTCAATAGAATTAAGGCTGAGGAATTCCCCTGGGCATGTGGATTTGACAGTCAATTAATTTTGTTGTCCTTGGAAGGTTACAGCATAGCATTTCCTCTGGGGCTGGTGTTACACTTAGGTCTGAATGTCATCTTTCCATTCAG
Seq C2 exon
GTGAGCTTTAGTATCGAGGCCAAGGTGCGTGGCTGCCCCCAGGAGAAGGAGCAGTCTTTCACTATCAAGCCTGTGGGCTTTAAGGACAGCCTCACCGTCCAGGTGACCTTCGACTGTGACTGTGCCTGCCAGGCCTTTGCCCAGCCTTCCAGCCCACGCTGCAACAATGGGAACGGGACTTTTGAGTGTGGGGTGTGCCGCTGTGACCAGGGCTGGCTGGGGTCCATGTGTGAGTGCTCTGAGGAGGATTACCGACCCTCTCAGCAGGAAGAGTGCAGCCCCAAGGAGGGCCAGCCCATCTGCAGCCAGCGGGGAGAGTGCCTCTGTGGCCAGTGTGTCTGCCATAGCAGCGACTTCGGCAAGATCACTGGCAAGTACTGTGAGTGCGATGACTTCTCCTGCGTCCGCTACAAAGGGGAGATGTGTTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020689:ENSMUST00000021028:9
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:
PF0036213=Integrin_beta=FE(10.4=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.4=27.8),PF079748=EGF_2=WD(100=25.0),PF079748=EGF_2=PU(32.3=6.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAATGCCACCTGCCTCAA
R:
ACTCTTCCTGCTGAGAGGGTC
Band lengths:
350-1607
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