MmuINT0084091 @ mm10
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77557390-77558139:+
Coord C1 exon
chr10:77557390-77557530
Coord A exon
chr10:77557531-77557951
Coord C2 exon
chr10:77557952-77558139
Length
421 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
AGGCCACCATTCCCCTCTAGGTC
3' ss Score
7.81
Exon sequences
Seq C1 exon
AAACTCTCCTCTAGAGTCTTCCTGGACCACAGCACCCTCCCGGACACCCTGAAAGTCACCTATGACTCCTTCTGCAGTAATGGAGCATCGAGTATAGGCAAATCCCGTGGGGACTGTGATGGCGTACAGATCAACAACCCG
Seq A exon
GTGAGCCTGGCCTGCCTATGCACCTGTGGTTCCTATAGCAGGGTGCTGGAGGATCCTGTGGCCATCTTGGTGACCCACTCCCGGACAGCTAGAAAGGAAAGGAGGATCACAGGAATAAGCAAGGGAGGAAACCATTAGTGACCAGGGCCCAACCTCCTCTTCTTCTAAACACCCATGAGGAGGCCAGATAGAAAATTAGGGGAGGGTACCAGACCTGATGTCAGCTGTAACTTCATGCCTATCAACACAGTGAATACCTGCACATTTCTATTTACAATGGCCCTGGGTAGAAAGATGAGCGTGGGATGACAGCACCCTCTAGGGGCACCTGCTGAACATGTATCTGAGAGGGTGGGCAAAGGACAAAAAGCAAGGCCTGGTCACCCACAGTTGGGAACTGAAGGCCACCATTCCCCTCTAG
Seq C2 exon
GTCACCTTCCAGGTAAAGGTCATGGCTTCCGAGTGTATCCAGGAGCAGTCCTTTGTCATCCGGGCACTGGGTTTCACGGATACAGTGACCGTGCAGGTCCGTCCCCAGTGTGAGTGTCAGTGCCGGGACCAGAGTCGGGAGCAGAGTCTCTGTGGAGGCAAGGGAGTCATGGAGTGTGGTATCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290:ENSMUST00000000299:10
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(11.1=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.1=60.3),PF126612=hEGF=PU(15.4=3.2)
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:
CTCTCCTCTAGAGTCTTCCTGGAC
R:
CTGCAGATACCACACTCCATGAC
Band lengths:
326-747
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