MmuINT0084094 @ mm10
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77560150-77561215:+
Coord C1 exon
chr10:77560150-77560372
Coord A exon
chr10:77560373-77561012
Coord C2 exon
chr10:77561013-77561215
Length
640 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CTCCTCCTCCTCCTCTGCAGCTC
3' ss Score
10.4
Exon sequences
Seq C1 exon
ATCGGGGTTCCTGCAACTGTGGCAAATGTAGTTGCAAGCCCGGTTACGAGGGCTCGGCCTGCCAGTGTCAGAGGTCCACCACGGGCTGTCTGAATGCACGGCTGGTAGAGTGCAGTGGCCGTGGCCACTGCCAATGCAACAGGTGCATATGTGACGAAGGCTACCAGCCACCGATGTGTGAGGATTGTCCCAGCTGTGGCTCGCACTGCAGGGACAACCACAC
Seq A exon
GTGAGTGTTCCCACTGCCCACATTGGCCTCACTGCTGGACTACCTGGGAGCCCTTGGGGACACCACTGCTCCAGAGTTCTTAGCAGGATTCAGCAGGTCCAGTGTCCCTGCCACCACCTGCCTTCTTGCATGGCTGCAGGAGCCCTGGCTTCACAGGGAGGATGCTAGGCCTAGGCCCCTTCAGCCCTTGAATGAAGTTTCCATTAACACTGGCTCTGCCTTCCATACCCTGGTAGGACCACAATTTGTGTCTCTCTCATCCCTCACTTGGTTACCCTGAGACTGAAAGCTCCCAGACCCTCCACCTAGGACCGCCTAGTTTGCAAATGACTACACTCTCCTCAGACCATACATCAGACACAACCATGTTTTTTCCTGAGTCATACACATGACCTTGCATAGCTCTGCAGTCCATGCACCCTCAAATACCAGTCAGTGTACCCACATACACCTGGACATCCTGGCACACACACTTTGACACACTAGCGCACCCTTCCACAACCACACACCTCCACGCACCTGCGTGCCCTGACATCACTGATGTGCCCTCGAAAGAACCAACATGCGCCAATTCACACCTCATGCCCTTACATGCTCTCAACACCCACCCCACCTGACTCCTCCTCCTCCTCCTCTGCAG
Seq C2 exon
CTCTTGTGCCGAGTGCCTGAAGTTTGATAAGGGCCCTTTTGAGAAGAACTGTAGTGTTCAGTGTGCTGGTATGACGCTGCAGACTATCCCTTTGAAGAAAAAGCCCTGCAAGGAGAGGGACTCGGAAGGCTGTTGGATAACTTACACTTTGCAGCAGAAGGACGGAAGGAACATTTACAACATCCATGTGGAGGACAGTCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290:ENSMUST00000000299:13
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:
PF079748=EGF_2=PD(60.6=26.7),PF079748=EGF_2=WD(100=41.3),PF079657=Integrin_B_tail=PU(6.2=6.7)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(85.0=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:
TCCTGCAACTGTGGCAAATGT
R:
CCTTCCGAGTCCCTCTCCTTG
Band lengths:
344-984
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