MmuINT0084096 @ mm10
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77564638-77565686:+
Coord C1 exon
chr10:77564638-77564804
Coord A exon
chr10:77564805-77565177
Coord C2 exon
chr10:77565178-77565686
Length
373 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CATATCTGGTTCCTCTTTAGGAC
3' ss Score
10.02
Exon sequences
Seq C1 exon
AGTGTGTGAAGGGCCCCAATGTGGCTGCCATCGTAGGGGGCACCGTGGTAGGTGTCGTACTGATTGGTGTCCTCCTCCTGGTCATCTGGAAGGCCCTGACCCACCTGACTGACCTCAGGGAGTACAGGCGCTTTGAGAAGGAGAAACTCAAGTCCCAATGGAACAAT
Seq A exon
GTGAGTGGCCTTGCTTTGGGAACCCTTGTGGTGCATGGGTGCTTCCTCTTCTCTTTGACCTCTCACAGGCAGCAATGGGCATACTCTCTATCCCAGCAGTGCTTGGGAGACCCACATAGAATGTCTTTCCTAGCTCTGTTACTTCTCACAGTGGGACTCGAGGCCATCTTGGAGAGATGGCGCACGCCTCACCCCAGCTTAGCCTCCGGTCTCCCAGAGTGTGCTGTGGTATACAGGCTTAGCCCTGAGGCTCAGGCCCTGGGGAGGCTTCCTGTCCGGGTTGGCTCTTCAGAGAGACTTCTACTGCTCTGGTGGCATCTTGGAGTCCTCACACCTCCCTGCACTGACAAGAGCATATCTGGTTCCTCTTTAG
Seq C2 exon
GACAACCCCCTCTTCAAGAGTGCTACGACAACGGTCATGAACCCCAAGTTTGCTGAAAGCTAGAGCATGAGTTATCATAATCAAGCAGATGTGACCCCCTCAGACCACGCCTCCTCCCCTCTGCAAACACAACGTGGCTTACAGCTCACCCCAGTGCTGCCAAGGATCCAAAAGCCTGCTCGGTTTCTTTCCGCCATTATATCAAGTCTGCCAGGGTTTCCAGGGACTTGTCTTCCGACCTGCACAATCTTGCCGCAGAGCCCTAAGAATTGTCCCGAGTCCCAAGAGGTTCCACCCACATTTTCTTGCATAAAGGAAGACAGCAGTCTCAGTAAAGGTGGCCCCAACTTATTTATATTTAAACTTGTCAGAGTATAAAACTCCTATTATATTGTTAACATCCCATCTGTTGTATTATATGTGAGTATAAAAACTATATCCAACGTATTATTTCATAATCATGTATGAAAAATAATAAAGCTTCCATCCATGCTGTCCATGGAAGGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290:ENSMUST00000000299:15
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:
PF079657=Integrin_B_tail=PD(7.5=10.7),PF087256=Integrin_b_cyt=PU(54.3=44.6)
A:
NA
C2:
PF087256=Integrin_b_cyt=PD(41.3=90.5)
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:
CCGTGGTAGGTGTCGTACTGA
R:
CTGGAAACCCTGGCAGACTTG
Band lengths:
348-721
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