MmuINT0084101 @ mm10
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77548546-77550101:+
Coord C1 exon
chr10:77548546-77548787
Coord A exon
chr10:77548788-77549945
Coord C2 exon
chr10:77549946-77550101
Length
1158 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
CCTGGATGCCTTCTTCCCAGGAG
3' ss Score
5.49
Exon sequences
Seq C1 exon
GCTTTGGGTCGTTTGTGGACAAGACGGTGCTGCCTTTTGTTAACACCCATCCTGAGAAGCTGAGGAACCCATGTCCCAACAAGGAGAAGGCCTGCCAGCCCCCATTTGCCTTTCGGCACGTGCTCAAGTTAACCGACAACTCCAACCAGTTTCAGACAGAGGTCGGCAAGCAACTGATTTCCGGAAACCTGGACGCCCCTGAGGGTGGGCTGGATGCCATAATGCAAGTTGCTGCATGTCCG
Seq A exon
GTGAGGCCATTGTCCCTGTTCAGATTTCCCAACTTCCTCAAACTCAGGGCCTTCACCAGTGCCGTGGTGGTGGGTCTGTTCAGACACTCACCCCATCTGGTCCCATGCTGTCACCCCGGGTCTCAGAAGGGCAGCCTCCGTGGGCCACATCACTCCCAGGCATAGAGAAGGAAGAGCCCTGAAAACACCCACCCATGCCCGTGCTAACTGACAGCCTTCATAGCTCTCCTGTGAGCCAGGCTACCCAGCAGCAGGTCTTCTGGTTCCTAAAGCCTTTTCCCTCTCAGATCAAGAGTGTGAGAACTGTTGTGGGACAAAGGAACAGGGGCCCATGTCACCTCAATCACATCCTGCCTGTCGGCTCCAGATTGTGTTTATCAAGTGGTCACTGCAGCAAGCCAATCCCACCCCAGCCTGGCTCTCAGCTCTCTCACTTTGCTGGGTTCACGCAGTGGGCACACACACTCTACATGTGTGTTGGACTAGGGTAGGATACATGGGTGCAGCAAGTGTATGCTACTTCAATGGTTCCAGGCCCTCGGCTCTCCTGTGGATGTCCCTTGGTCCCTTCTTTTGTGGCTGGGAGGTGTTTGCATTTTAACATACAAGGCCATACTCTTTTCCTTTCATGACTGTGTTGCTGGAATCTAGTTTCAGGTCTGAAGAGGGTTGCAAAGACATTTCTCTTTAGATTCAGATGTGTTTCTGTTCTTACCTCATACTGCTGCAGGGCATGCTGGGAGTTGACGGCTTTGGCACTTCCTTGGCACTGGATTGGGGCTCTATCTTCCTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCGTATCTGGGGGGTGTCTGTTTGTTTCCATGTTTCTGTCTCTCTTTATATATATATATCTGTCTCTCTCTTTATCTCTATCTGTTTTTATGTCTTGTTGTCTCTGTCTCTATGTCTCTGTGTCTCTATCACTCTGTGTGTGTGTGTCTCTTTGTATGTATGTCTCTGTCTGTTTGTCTGTCTCTTTCTCTGTCTTTCTATCTCTCTGTGTCTCTCTTTCTGTCTCTGTCTCTCTCACTCTCCCTCACACACACACAACTCTTCTCCCCTGAGGGCCCCATGGGGAAACCAAGGCAGGTAACCCCTGGATGCCTTCTTCCCAG
Seq C2 exon
GAGGAAATTGGCTGGCGCAATGTCACGAGGCTGCTGGTGTTTGCCACAGACGATGGCTTCCACTTTGCTGGTGATGGCAAACTGGGTGCCATCCTGACCCCCAATGATGGCCGCTGCCACCTGGAGGATAACATGTACAAGAGGAGCAATGAGTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290:ENSMUST00000000299:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.085 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(32.0=95.3)
A:
NA
C2:
PF0036213=Integrin_beta=FE(12.3=100)
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:
TCGTTTGTGGACAAGACGGTG
R:
CATCATTGGGGGTCAGGATGG
Band lengths:
343-1501
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