MmuINT0084062 @ mm9
Intron Retention
Gene
ENSMUSG00000025809 | Itgb1
Description
integrin beta 1 (fibronectin receptor beta) [Source:MGI Symbol;Acc:MGI:96610]
Coordinates
chr8:131234153-131237278:+
Coord C1 exon
chr8:131234153-131234375
Coord A exon
chr8:131234376-131237107
Coord C2 exon
chr8:131237108-131237278
Length
2732 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
TTTTGAATCTTGTTAATTAGGAG
3' ss Score
5.35
Exon sequences
Seq C1 exon
ACATTTTTGCAAGAAGGAATGCCTACTTCTGCACGATGTGATGATTTAGAAGCTTTGAAAAAGAAGGGTTGCCAGCCAAGTGACATAGAGAATCCCAGAGGCTCTCAAACTATAAAGAAAAATAAAAATGTCACCAATCGCAGCAAAGGGATGGCAGAGAAGCTCCGGCCAGAAGACATTACTCAGATCCAACCACAACAGCTGCTTCTAAAATTGAGATCAG
Seq A exon
GTACCTCTATCCCTACCTGAGTTTTCCATAGCAAGTTTATACAAGCCTTTTCCCAGTCTTTTGATGGTTCATTTGGGTGAACTGGTACCCCAAATAGGGCATAAGTTAAATTTTAGAGGACATAACCTCTTTTTGTTGCTTTTTGCTGTCCTGGAACTTGCTCGGTAGACCAGGTTGGCTTCAGTCTCAGAGATCTGCTTGTCTCCTCTTCCCAGATGCTGGGATTAAAGGTGTATGCCACACTTTTGATTCCTGGCCACAATTTTTGTAAGACATATTACTTTTAATAATTTAATGATAGAGATTAAAGTTAAGAGTGAAATGTTCTCTGTGTAAAGGCACTGCTACACAAAGGTGAGTAACGATCTAGTTTTACTTTAGAGTTGTAAAAGGAAGTTACAGAGGTGAAGTCATAATTACAAAAAGATCAAGGAAAAAAAGATGAAGCCTAAACTGAAAAATGAGGAAGGCGAGAGAGGTAAAAGTTGTTACATGTTATTTACTTAAAAAGCACAGAGCTGGAAGGCAGCTTAGTGGTAGAGCATCCATCTGTTAGTATAATTTCATAATATAAAAGCAAAGTTTTACTTATTTATTTAATGTATATGAGTACACTGTAGCTGACTTCAGACGTACCAGAAGAGGGCATTGGATCCCATTACAGATGGTTTGAGCCACCATGTGGTTGCTGGGAATTGAACTCTGGACCTCTGGAAGAGCAGTCAGTGAAAAGCTAAGTTTTAATCCATACATCGTTTAGTACCATTTAAATACTAACGATTTTATAAGTGCTCATGGCCATCCCACCTCTGAAATAGACAACATGCCCTCTTTCTGCCTGTCATCCTTCCATCCTGTTACTGCTGCCTGGCTAAACTTCAGCCTAGGAAATAGACATTGTTATAGTTTGAATGTGAAATGTCCCACTTAGGTTCCTGCATGCCGACTTTTGTTCTTGGCTTGTAGTGCTGTTTTGGGAGTCTGTGGAGCCTTCAGTTGCTGAGGCTTGACTGGCAGAGTGTGTGTCTCTGGGGGTGGGCTTTAGTTTCCTGAGTTGCCAAGACATAGAGTGCTGTTCCCTCTTGGTCCTGCTCTAACTTCTGTGACCTTCTTGAAACTGAGCCAAAAATAAATCTTCTTTCTCCTAAGTTGCAATGTCAGGAAAAGTACTTAGTACAGACTTCTTGTACATATACTGTAGTGGAATACTACTATCATTCTTTGACCTGCAGGATCCTGATCAGGACATTGATTATGTATTTGCCTAAGTCACATTTTATTTTAATCATCATTACTTAAAAACATTTTTTAGGTTTACTTATTTTTTATATGCACATTTTGCCTGTATGAATACATGCATATGTGCACCGTGTATGTACCTGGTGCCTGCAGAGGTCAGAAGTTATCAGATCCCTTGGAACTGAAGTATGGTTATGAGCTGACATATGTTAGGAGTTGAACCTGGGTCCTCGTAAAAGCAGCAAGTGCTCTTAACTTCTAAGTCATCTCTAGCCCCTCGTCGTTACTCCTACTGTGGGGAGCTTGTAAGAGGCTCTCTTCTTAAACTTAGGAGTCCATGTCACTGCTGGTTTTTCTCAGTTCCTTCCATTGCTTCCAATTTCCTTTTTGTGTTTTCTTCCTTTCATCCTTCTGCAAATTTAGGTAAGACTTGGTTTTCCTCTCATCATCATTGGAAATCATCATTCAGCAATGACATAAGCTTTTCCGTTTAGCTCTGTACCTGTTCTCCAGCTGCCTGCCAGGAAGTCAGGGAAAAAAGATCGTTTTTCATCTAAGCAGACCTTCCATTTTCTCCCATGTTTGTGTTTTATTTTGTGGTACTGGAGATAGAATTTAGGATCTCTCATGTGCTGGGCAAATGCTCTACCACTAAGCTGCCTTCCAGCTCTGTGCTTTTTAAGTAAGTAACATGTAACAACTTTTACCTCTCTCGCCTTCCTCATTTTTCAGTTTAGGCTTCATCTTTTTTTCTTGATCTTTTTGTAATTATGGCTTCACCTCTGTAACTTCCTTTTACAACTCTAAAGTAAAACTAGATCGTTACTCACCTTTGTGTAGCAGTGCCTTTACACAGAGAACATTTCACTCTTAACTTTAATCTCTACCTGTCTAGAATGTACCTTTCATTCTGCCAAAACTCATGGTGTTCTGATTTTCTCATAAGTTTTTGTGTAAATCACCTTGTGGTTACAGTAACAACTACTTGAAATACATGTAAAAAGAAAAGCTTATTTTGGGCCATAGTTTTAGAAGTTTTCATCTGACGGAGTGGCCTGTTGCTCTGAGCTTGTGGTGATGTGAGATGTCATGGTGGGGCATCTGGGAGATAAGACAGAAAGGAGGTCCCATAGACTCCAGGGCACATCACTGGTAACCCAAACCTCCTGCTAGTCCTTACCTCTCAAACTTCCCACTGCCTCCTGAAAGTACCAACACATGGGCAGATCCAAACTGTAGCAGAATTATTTGTATTTTGTGGGTTGCTGGAGAGGGCATTGCCTTCATCATTTTTGCCTCCTTAGGTCTTGGAGTTGTAAATGGTTGGTTAAACGAAATCAAGTGTGCCTGTTGAGGCGCTAACAAAATTCTTAGATTTGGAAAAAATATACACTTAAGACTATATCATTGAACATGTAAATTGGACTTACTTTTTTTCTCATTTTATTTTGATTACTGGCCATCTAATTTCAGTTTTGAATCTTGTTAATTAG
Seq C2 exon
GAGAACCACAGAAGTTTACATTAAAATTCAAGAGGGCTGAAGATTACCCTATTGATCTCTACTACCTTATGGATCTCTCCTACTCTATGAAAGATGATCTGGAGAATGTGAAAAGTCTTGGAACGGATTTGATGAATGAAATGAGGAGGATTACTTCAGACTTCCGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025809-Itgb1:NM_010578:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.467 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(17.2=100)
A:
NA
C2:
PF0143720=PSI=PD(9.5=50.0),PF0036213=Integrin_beta=PD(20.8=62.5)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: