MmuINT0084101 @ mm9
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77011291-77012846:+
Coord C1 exon
chr10:77011291-77011532
Coord A exon
chr10:77011533-77012690
Coord C2 exon
chr10:77012691-77012846
Length
1158 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGG
5' ss Score
9.35
3' ss Seq
CCTGGATGCCTTCTTCCCAGGAG
3' ss Score
5.49
Exon sequences
Seq C1 exon
GCTTTGGGTCGTTTGTGGACAAGACGGTGCTGCCTTTTGTTAACACCCATCCTGAGAAGCTGAGGAACCCATGTCCCAACAAGGAGAAGGCCTGCCAGCCCCCATTTGCCTTTCGGCACGTGCTCAAGTTAACCGACAACTCCAACCAGTTTCAGACAGAGGTCGGCAAGCAACTGATTTCCGGAAACCTGGACGCCCCTGAGGGTGGGCTGGATGCCATAATGCAAGTTGCTGCATGTCCG
Seq A exon
GTGAGGCCATTGTCCCTGTTCAGATTTCCCAACTTCCTCAAACTCAGGGCCTTCACCAGTGCCGTGGTGGTGGGTCTGTTCAGACACTCACCCCATCTGGTCCCATGCTGTCACCCCGGGTCTCAGAAGGGCAGCCTCCGTGGGCCACATCACTCCCAGGCATAGAGAAGGAAGAGCCCTGAAAACACCCACCCATGCCCGTGCTAACTGACAGCCTTCATAGCTCTCCTGTGAGCCAGGCTACCCAGCAGCAGGTCTTCTGGTTCCTAAAGCCTTTTCCCTCTCAGATCAAGAGTGTGAGAACTGTTGTGGGACAAAGGAACAGGGGCCCATGTCACCTCAATCACATCCTGCCTGTCGGCTCCAGATTGTGTTTATCAAGTGGTCACTGCAGCAAGCCAATCCCACCCCAGCCTGGCTCTCAGCTCTCTCACTTTGCTGGGTTCACGCAGTGGGCACACACACTCTACATGTGTGTTGGACTAGGGTAGGATACATGGGTGCAGCAAGTGTATGCTACTTCAATGGTTCCAGGCCCTCGGCTCTCCTGTGGATGTCCCTTGGTCCCTTCTTTTGTGGCTGGGAGGTGTTTGCATTTTAACATACAAGGCCATACTCTTTTCCTTTCATGACTGTGTTGCTGGAATCTAGTTTCAGGTCTGAAGAGGGTTGCAAAGACATTTCTCTTTAGATTCAGATGTGTTTCTGTTCTTACCTCATACTGCTGCAGGGCATGCTGGGAGTTGACGGCTTTGGCACTTCCTTGGCACTGGATTGGGGCTCTATCTTCCTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCGTATCTGGGGGGTGTCTGTTTGTTTCCATGTTTCTGTCTCTCTTTATATATATATATCTGTCTCTCTCTTTATCTCTATCTGTTTTTATGTCTTGTTGTCTCTGTCTCTATGTCTCTGTGTCTCTATCACTCTGTGTGTGTGTGTCTCTTTGTATGTATGTCTCTGTCTGTTTGTCTGTCTCTTTCTCTGTCTTTCTATCTCTCTGTGTCTCTCTTTCTGTCTCTGTCTCTCTCACTCTCCCTCACACACACACAACTCTTCTCCCCTGAGGGCCCCATGGGGAAACCAAGGCAGGTAACCCCTGGATGCCTTCTTCCCAG
Seq C2 exon
GAGGAAATTGGCTGGCGCAATGTCACGAGGCTGCTGGTGTTTGCCACAGACGATGGCTTCCACTTTGCTGGTGATGGCAAACTGGGTGCCATCCTGACCCCCAATGATGGCCGCTGCCACCTGGAGGATAACATGTACAAGAGGAGCAATGAGTTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290-Itgb2:NM_008404:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(32.0=95.3),PF135191=VWA_2=PD(43.7=72.1)
A:
NA
C2:
PF0036213=Integrin_beta=FE(12.3=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:
TCGTTTGTGGACAAGACGGTG
R:
CATCATTGGGGGTCAGGATGG
Band lengths:
343-1501
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: