MmuINT1021448 @ mm10
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77547126-77548787:+
Coord C1 exon
chr10:77547126-77547296
Coord A exon
chr10:77547297-77548545
Coord C2 exon
chr10:77548546-77548787
Length
1249 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
3' ss Seq
CTCATACCATGTACCCTTAGGCT
3' ss Score
7.68
Exon sequences
Seq C1 exon
GACAGGCTGCCGCATTCAATGTGACTTTCCGGCGGGCCAAGGGATACCCCATTGATCTGTACTACCTCATGGATCTCTCCTACTCCATGCTTGATGACCTCAACAACGTCAAGAAGCTGGGCGGGGACTTGCTGCAGGCCCTCAACGAGATCACCGAGTCTGGCCGCATCG
Seq A exon
GTGAGACCTGCAGTGCACACACTCCTTTCAACCTTGGGAACTCCCTGCCGCCCCACACCTCCATGTACGGTGGATCCGCAGAGGCAGAAGCTGGGAGCTGCATAGGCAATGTTCGTGGGGCCAGAGTTCATCCTGAATCCTTACCAGGGGCTGTCCTTGGTCACAGGCTGCTAAGACCTCTCTCTCTCTCTCTCTAGTTTATATTTTAATGTTTAAAAGGCAAAAGTCCTACAATGCTAATTACTAAAAAGTATATCTACCTTAACACAGCAACCATGCATTAACAGAATAGTGGAAGTAAACTACAGGGCAGGGGTCACAGGGCTAGGGCCACTGGGCAAGGGTCACAGGGCAGGAGTCATAGGGTGAGAATTACAACACTGACCAATACCACCAAGCATGTGGGACAAGGGAACAGGGTACACCTACTCACTCCAGAACATCCCTCTGCCTCATCGTCTATGTTTAAGGATGCCCACATGAACACGAACACTGGATGCAAGCTCATATATTCTTCTTTTTTTTTTTTAAGACTTTTTAATTTCATTTATATGAGTACACTGTAGCTGTCTTCAGACACACCCGAAGAGGGCATCAAATCCCATGACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGAACCTCTGAAAGAGCAGTCAGTGCTCTTACCCGCTGAGCCATCTCTCCAGCCCCCATATATTCTTGTGTGTTCATACATTCACATGTGTACATTCGTGTTCACACATGTCCAAGATCCCATACACAAGCACATTTGCACATGTGCAAGCAAGCACATGTACAAATGCCTAGTCATACCTGTGTGCCTGTATGCCTGCATACACAAGACCACATGTATATATACAGGTACTCGCATGCCCACCCACACTCATGGTCACACCTGTCCATGACCCCATACATATACATGCTCTGTCACATGCACACACATGTTTGTACATGGCCTCACATATACTCAGCCGCACATGGCTACACACATGCTTGCACCACACGCTCAGCTATCATGTTCACACAACCATCATCTTGCTTTCTCCCTTGTTTGAGAAACTGAGGCTTGGTCCTTAGTCCACTGGAAGGTTCACTGTCATGCCTGGAGCCCTGCCTGCTGCCTTGTCCCTGTGCCCTCCAGCCTCTGTTGTATATCCCTTGGACTCCAGGTCTTCCCAGTCCTGGTGTCTGCTTCTGTCTGCTGTCCCCCTGCCTCATACCATGTACCCTTAG
Seq C2 exon
GCTTTGGGTCGTTTGTGGACAAGACGGTGCTGCCTTTTGTTAACACCCATCCTGAGAAGCTGAGGAACCCATGTCCCAACAAGGAGAAGGCCTGCCAGCCCCCATTTGCCTTTCGGCACGTGCTCAAGTTAACCGACAACTCCAACCAGTTTCAGACAGAGGTCGGCAAGCAACTGATTTCCGGAAACCTGGACGCCCCTGAGGGTGGGCTGGATGCCATAATGCAAGTTGCTGCATGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290:ENSMUST00000000299:5
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=0.085
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(41.5=91.7)
A:
NA
C2:
PF0036213=Integrin_beta=PD(32.0=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAATGTGACTTTCCGGCGG
R:
CGTCCAGGTTTCCGGAAATCA
Band lengths:
352-1601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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