MmuINT0084102 @ mm10
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77549946-77551068:+
Coord C1 exon
chr10:77549946-77550101
Coord A exon
chr10:77550102-77550972
Coord C2 exon
chr10:77550973-77551068
Length
871 bp
Sequences
Splice sites
5' ss Seq
TTCGTGAGT
5' ss Score
7.9
3' ss Seq
AAGCTGTCCCCTCTCTCCAGGAC
3' ss Score
9.74
Exon sequences
Seq C1 exon
GAGGAAATTGGCTGGCGCAATGTCACGAGGCTGCTGGTGTTTGCCACAGACGATGGCTTCCACTTTGCTGGTGATGGCAAACTGGGTGCCATCCTGACCCCCAATGATGGCCGCTGCCACCTGGAGGATAACATGTACAAGAGGAGCAATGAGTTC
Seq A exon
GTGAGTGCTCTGCCTGCCTTGGCACGCCCCGGTACCAAGGCTGGTTACATAAACATAAAGGTTACAGGAGTGACAACGGGACAGGCTGAGAGCAGAGTCACATTGCCCAATCACACAAACAGAACCCAGACTCCTCCTAACACGAATAACAAATCACAGATGCAGTCCCAGAGACCCTGGTGATAACATGAGACTCCCAGCACCCACATCAGCCTGCAGGGCAGTCCTCACCCTGATCCTCATGGCAGAGGGCCTCACACAGCCTTCTCCATCCACCACACAGTCTCTTTGAGTGCCTGCTCTGCCTGCAATGACCTTGTCATAGCCCCAGGCCATCCCTGCACACTCATTGCCTTCCCAAAAGTACCATAAAGGATTTTTTTTTTTTGAGCTCAGACTGCAGGGACTATCTGGAACCCACTGATTTGGAGTTGGTAGCAGATAGAATAAGGGGGTCCTGACTCTGGTATCTTGTGTCCAATAGCCCCCCCCCAAAGTTGAATATCGTGTCCTTCTGCTATACATCATGGAGGTGAATGGCAGAGCCTAAAATCTAGCACTAGTGGAAGCATAGGTCCTTCCTAGGTGCCCATACACCAGTTCCTCGGGGTTCTGCTTGTGCTCCGGCTGGCTTAGCAGCTAGAGTGGTGACTGATGGTAGCTTCTTTACCTGGGATTAACCATCACAATTGTCAGTATTCTCTTCTTGTATTTCAAAGGCTTTGGCTGGTTCCCTGCTAAGCCTGTCACAAGCTCATAGATCTAACACCAAGCGAAGCCCAGCCTGAGCCAGGACTGATGCTCTGTCAGCCCAGACGTGTCCTGAACGTGTCCTGGAAGGCTTGTCTGACAAGCTGTCCCCTCTCTCCAG
Seq C2 exon
GACTACCCATCCGTGGGTCAGCTGGCACACAAACTTTCCGAGAGCAACATCCAGCCCATCTTTGCGGTGACAAAGAAGATGGTGAAAACGTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290:ENSMUST00000000299:7
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(12.3=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(7.5=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:
GAGGAAATTGGCTGGCGCAAT
R:
CGTTTTCACCATCTTCTTTGTCACC
Band lengths:
246-1117
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