MmuINT0084104 @ mm9
Intron Retention
Gene
ENSMUSG00000000290 | Itgb2
Description
integrin beta 2 [Source:MGI Symbol;Acc:MGI:96611]
Coordinates
chr10:77018833-77020275:+
Coord C1 exon
chr10:77018833-77018922
Coord A exon
chr10:77018923-77020134
Coord C2 exon
chr10:77020135-77020275
Length
1212 bp
Sequences
Splice sites
5' ss Seq
TATGTGAGT
5' ss Score
5.56
3' ss Seq
CAGCTGCTCTCTTCCCCTAGAAA
3' ss Score
9.48
Exon sequences
Seq C1 exon
AAACTCACGGAGATCATCCCCAAGTCAGCAGTGGGGGAACTGTCTGACGACTCCAGCAACGTGGTGCAGCTCATCAAGAATGCCTACTAT
Seq A exon
GTGAGTCTCCAGCAAAGCTGGGCGGGGCGGGCTGGCAAGCATCCAGTGGGTCAGCGGATAAGTGGATGGGGGGGGGATGAGGAAGATACATTGTCTTTGGGGGCTCTTGCTGAGATCCTCATAGCTTCTGGACAGGCAGGGCAGGGAGAAAGAAGGGAGGGTAAGGAGATATAGACCGGTCACTTGCCACAGCTTGTGTCCTTCCATGGCCACCCTTTCTCAGACCCTACCTGGGCATTTCCCAAAACACCAATGGCAGGCCCTTCTTCCTGGCTCTTCCCCGCAGCCACCATGGAATAGCGGGGAAGTAGAGGGCTGGAGAAGGCAGAATGGTACCTCTCAGAGTGGGGAGACCCCAGAAATCAGCACAGTGGCCTTGGACCTTGTGAAGACTCCCTTGTGCCTCTTGTATGCCAGTCCCTAACGTTATTCTGGGTGAGCCCTCCTTGGCCCCTCTTCCATCCTTCTACTCCTCGGGGGTGCGCAATTTGTCCAAATGCACGCAGATTTGCTTGCCACAGAGGCCCAGTGTCCTGGTGAATACCGGTGTGCATCCAACACGGCTCATGACTCAGAGCTCAGACACATCCAGTCCCAAGAAATAACAGAAATCTCCTCTCAGTGACAGGTGTCCCCGAAAGTCTGGCCCACATCCTGTTGCTGAGCATCTTGAAGACTGGCAGTACATATTGTGTGGGAAGCCTCTCAATATGACTGTTCCTTATTAGAAAACAATCCCGGGGCTTGGGTGGGGAATCCTGTTTTCTTCTCTGGCCCTGTGAACCCTGGGTGCTGCAGGCAGACTGCTGTACCTGGCCACTGCCCAGTCATGACTAGCTCTATCTTCACAGGGATGACTTAGGTGATGCCATCTTTGCCTACTTGATGGATGCCACCTGTAGTCTTTCTCTTTCCAGCTGTGCCTCAGTTCTCACATCACTTCAACAATCTATCATTCCTTTGCTGCTAACCCTGAGGTTCAACAGTGAAGGGATAGTCCTCACAGGGTCCATGGCCTGTGTCTGTGCTGGTCACCTGCTGGTAGCCTGTCTCAGAGCAACCCCATGACATCCGCTGCCCCATGCTGTCGCAACAACTGAGCGCCCATTAGGTGTCTGTGTCATCCGCTGATGTGCAGGAGGGACTTGATGAGTGAGATAGCAGGTACAGCCACTCCTGTCTCTCCTGAGCACAGCTGCTCTCTTCCCCTAG
Seq C2 exon
AAACTCTCCTCTAGAGTCTTCCTGGACCACAGCACCCTCCCGGACACCCTGAAAGTCACCTATGACTCCTTCTGCAGTAATGGAGCATCGAGTATAGGCAAATCCCGTGGGGACTGTGATGGCGTACAGATCAACAACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000290-Itgb2:NM_008404:9
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:
PF0036213=Integrin_beta=FE(7.0=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(11.1=100)
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:
AACTCACGGAGATCATCCCCA
R:
CGGGTTGTTGATCTGTACGCC
Band lengths:
230-1442
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: