MmuINT0084058 @ mm9
Intron Retention
Gene
ENSMUSG00000025809 | Itgb1
Description
integrin beta 1 (fibronectin receptor beta) [Source:MGI Symbol;Acc:MGI:96610]
Coordinates
chr8:131248096-131250086:+
Coord C1 exon
chr8:131248096-131248328
Coord A exon
chr8:131248329-131249919
Coord C2 exon
chr8:131249920-131250086
Length
1591 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
ATTAACCTTTTCATTTGTAGACT
3' ss Score
9.19
Exon sequences
Seq C1 exon
AGAATGTGTTCAGTGCAGAGCCTTCAATAAAGGAGAAAAGAAAGACACGTGTGCACAGGAGTGCTCCCACTTCAATCTCACCAAAGTAGAAAGCAGGGAGAAGTTGCCCCAGCCGGTGCAGGTCGATCCTGTGACCCATTGCAAGGAGAAGGACATTGATGACTGCTGGTTCTATTTCACCTATTCAGTGAATGGCAACAATGAAGCTATCGTGCATGTTGTGGAGACTCCAG
Seq A exon
GTAGAAGTCAGAGGATGCCTAGCATTGTTTCTTATGATGCCTTGCTTTTATTCTGAGTCATTGCTGGGGTTCTGGTGGCAGAAACAGCCTGTATTCTTATCTTACTATTTATATTAGGTTTATATTGGGATATTTTCTTCTCAAAGCTTAAAGTAGAATTTGGCTAATTATATAACAACTAAGGAAGGAATCAAGTTTATGTAAATGGAACCCATGCTATACTGTTGGTGCTATTTAAATCTGAGCTTGATCCAGCTTTAGGAGCCGGAAGAAGATATCCTAAAGATATTATTAATGTTGAATTTGTTCAACTTCCCGGAAACTAAGCACATTTCACCTTTGTTTTCCTAGTAGCCTTCCTTGTCACTCTGTCAGGTTTCTGGTATGGACACATTTTAGAGGATGTGGTAAACGTCTGTTCAGTGTTACAGGAAATGCTCCAACTTTTACTTCTTTTTACAAATGCTTTTAGTGTTTGAAAAAAGAGAGGACAACTTTGTGGAATTGTTTCTCTTTTGCTGGATGGGTTCCTGAGCATCAGACACATGTGGTCAGTCTTGTTAGCAAGTGCCTTTACCCACTGAGCCCTCTTGTGGTCTCTGCATTGTTCTGCAGCACCAGACAGGAGCACTGTGAATACTGTTGTATGTGCCTCTGTGTTTTTCCATTGCCTTAGCAATTTTTGAACACAGGGGCTTTATTGCTGTTTTTGTGGTGGTGTGCAGTGAACCCAGGGTGTTGCAATAGTGGCTTCCTGATTTATTTCTACAGTGTTAATGATGAGACTTTGATTGACATGGCAATAGATTACAGATTAAATTGGGGAAAATGCATCTTGATAAAATACTGTCTTTTTAAAAATTAATTTAGTATGTGGGCAGAGGGTTAGGGTTAGGGTTAGAGGGTTTTTTTCATGTGCCATGGATTTCTCCAATTACCCCAGTCATTTTTATTTGCTTGAGGACAGTCTTACCATGTAGCCCTTGGCCAGTCTGGAACTAACAACCTACATTAGGCTACTTCGAAGTTGTGGCAATCTTGCAGCCTCTGCCACTTGAATGCTAACCTATACTACCATGTCTGGCTGCCAATCATCTTTACTACTGTCTTTTATCATTACTTAGTACTTTATAATCTTGAAAAAATATTTTAATTATATATAAGCTTTTCATTATTTTTGATGCTGTTACGATTTTTTTTTAACATTTTTCAGTCTTTAGCTAAAGAAATAGATTTTATGACCCCCAAATAAATGACCTGCTGATCATATTTTCTACTGTCTTCTAAGCTCCCTTGTTAGAGCCTAGTAGCTTCTTTTTGTTTGAGACAGGGTCTTACCTTGTCTGGTCTGGAACTCACTTTGTAGATCAGGCTGACCTCAAACTCCTAGAACTCCATTTTGAGATTAAAGGTATGTGCCACCACACCTAGCCTGGAACTTAGTAGCTTTTAAATAGGTTTTTGGGACAGTGCAGTCTCTTGAGTGTTCAGCACTATTAATTTTGTAAGATCCCATCCAACTCTTTGTGGTCATGTGAACTTTGTATATACTCAGTCTTTTTATGCTCACGATTAACCTTTTCATTTGTAG
Seq C2 exon
ACTGTCCTACTGGTCCCGACATCATCCCAATTGTAGCAGGCGTGGTTGCTGGAATTGTTCTTATTGGCCTTGCCTTGCTGCTGATTTGGAAACTTTTAATGATAATTCATGACAGAAGGGAATTTGCTAAATTTGAAAAGGAGAAAATGAATGCCAAGTGGGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025809-Itgb1:NM_010578:14
Average complexity
IR-S
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:
PF079657=Integrin_B_tail=FE(87.6=100)
A:
NA
C2:
PF079657=Integrin_B_tail=PD(15.4=10.7),PF147521=RBP_receptor=FE(63.2=100),PF111883=DUF2975=PD(74.6=94.6),PF087256=Integrin_b_cyt=PU(53.2=44.6)
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:
AGACACGTGTGCACAGGAGT
R:
CGTGTCCCACTTGGCATTCAT
Band lengths:
358-1949
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: