MmuINT0084099 @ mm10
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77546013-77547296:+
Coord C1 exon
chr10:77546013-77546193
Coord A exon
chr10:77546194-77547125
Coord C2 exon
chr10:77547126-77547296
Length
932 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TGCTTTTCTCTGACACGCAGGAC
3' ss Score
7.44
Exon sequences
Seq C1 exon
AACTTCACTGGACCAGGAGAACCTGACTCCTTGCGCTGTGACACACGGGCACAGCTGCTGCTGAAGGGTTGTCCAGCCGATGATATCATGGACCCCAGGAGCATCGCTAATCCTGAGTTCGACCAACGGGGGCAACGGAAACAGCTATCTCCACAAAAAGTGACACTTTACTTGCGACCAG
Seq A exon
GTAGGTATGGAACCTGGTTGGAATGTGTGTGTGTGTGTGGCGGGGGGGGGGGGGGGGGTGGAACATCCCAGAGGGTAGGGAGAAGAACCATGGCCATTGACATGAACCCGCATGGCAATTACCAGCCACAAGTTGCTATGATTTCATAAGGTTAGAAATATTGGGTTAAAGCTTTATCATTATCAACTGGCTCTGAAATTCTTTATTGGCATCTTGTAAATTGTTATTTTATTGATACATAAATCTAATTGGTTAACTTTAAGATTAAGAGTCTAATTTTGCTTGGCAGTGGTGGCACATGCCTTTAATCCCAGCACTTAGGAGGCAGAGGCAGATGGATTTCTGAGTTCAAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCTGGGCTATACAGAGAAACCCTATTTCAAAAAGCCAAAAAAAAAAAAAGTCTGATTTTACCAGAGTATTGGGTGTTGTGAGATGCAACTGCGAGGTTGGTGGTTCTATTTGGCCACTGGAGTGTGGGATCTCTGGTTACAGGGGATTATAGCAGAAAGGGAACTAGTGGTTCCCTGGACAAGCAAGCCAGATGCTGCAGGTGGGGGGGGGGCAGGTAGCTGCAGAGAGTTGACAGGTTCATTTTTTAATATTTCCACAATAGATGGCACCCAATGTGGGGCACCTGACTATTTCTAGCACCATAATCTGGGTGTCTAGGCTTCCAACTCATGAATCTGCACCTTACAGAAACCCTCCACCATCCAGGCATTCTTGTACCTGGGGTGAGCCTACTTATCTGAGTTCAAACCTACCTGTCCTGTGTTCTGGTCACAACCCCTTCCAGGTCATAGGAAATGGGGGAGACAATAGGAATCTGGGGACTGGGTGAGAGCCAAGACTCCAGCCAGGCTCAGAGTGTCCCTTGCTTTTCTCTGACACGCAG
Seq C2 exon
GACAGGCTGCCGCATTCAATGTGACTTTCCGGCGGGCCAAGGGATACCCCATTGATCTGTACTACCTCATGGATCTCTCCTACTCCATGCTTGATGACCTCAACAACGTCAAGAAGCTGGGCGGGGACTTGCTGCAGGCCCTCAACGAGATCACCGAGTCTGGCCGCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290:ENSMUST00000000299:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.323 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PU(22.7=90.6)
A:
NA
C2:
PF0036213=Integrin_beta=PD(41.5=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCACTGGACCAGGAGAACC
R:
CCAGACTCGGTGATCTCGTTG
Band lengths:
342-1274
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