MmuINT0084056 @ mm10
Intron Retention
Gene
ENSMUSG00000025809 | Itgb1
Description
integrin beta 1 (fibronectin receptor beta) [Source:MGI Symbol;Acc:MGI:96610]
Coordinates
chr8:128722384-128723032:+
Coord C1 exon
chr8:128722384-128722622
Coord A exon
chr8:128722623-128722809
Coord C2 exon
chr8:128722810-128723032
Length
187 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
AATGATCTTTTTCGTTGCAGGCA
3' ss Score
9.7
Exon sequences
Seq C1 exon
GTGCAATGAGGGGCGTGTTGGGAGGCACTGTGAATGTAGCACAGATGAAGTGAACAGTGAAGACATGGACGCTTACTGCAGGAAAGAGAACAGTTCGGAAATCTGCAGTAACAATGGAGAATGTGTCTGTGGACAGTGTGTGTGTAGGAAGAGAGATAATACAAATGAAATTTACTCTGGAAAATTCTGCGAGTGTGATAACTTCAACTGTGATAGGTCTAATGGCTTAATTTGTGGAG
Seq A exon
GTGGGTAAGCACCAGCAGTAGCTACACACATAGTTCCTCTAATGAGATCAGATATCTGAGAGTCTCTGGGTTAACACACAGAAGGGGAGGGGCTTTCTTCTATGTTGTGGCTTGTTTTTAATTTGTGAATAATTGCTGTGATTATACATTTTACCATTGTTTTGAGAAATGATCTTTTTCGTTGCAG
Seq C2 exon
GCAATGGCGTGTGCAGGTGTCGTGTTTGTGAATGCTATCCCAATTACACTGGCAGTGCATGTGACTGTTCTTTGGACACTGGTCCATGTCTAGCGTCAAATGGTCAGATCTGCAATGGCCGGGGTATTTGTGAATGTGGTGCTTGTAAGTGCACAGATCCCAAGTTTCAAGGGCCAACTTGTGAGACATGTCAGACCTGCCTTGGCGTCTGTGCAGAGCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025809:ENSMUST00000090006:12
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=WD(100=46.9),PF079748=EGF_2=PU(32.3=12.3)
A:
NA
C2:
PF079748=EGF_2=PD(64.5=26.7),PF079748=EGF_2=WD(100=42.7),PF079657=Integrin_B_tail=PU(4.5=5.3)
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:
GGGAGGCACTGTGAATGTAGC
R:
TTCACAAACACGACACCTGCA
Band lengths:
252-439
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