MmuINT0084117 @ mm10
Intron Retention
Gene
ENSMUSG00000000157 | Itgb2l
Description
integrin beta 2-like [Source:MGI Symbol;Acc:MGI:1277979]
Coordinates
chr16:96432580-96433632:-
Coord C1 exon
chr16:96433477-96433632
Coord A exon
chr16:96432676-96433476
Coord C2 exon
chr16:96432580-96432675
Length
801 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGA
5' ss Score
2.4
3' ss Seq
AAAATGTCTCTTCTCCACAGGAC
3' ss Score
10.95
Exon sequences
Seq C1 exon
GGAGAAATCGGCTGGCGCAATGGGACCCGATTTCTGGTGCTTGTTACTGACAACGATTTCCACTTGGCTAAAGACAAGACTCTGGGTACCAGACAGAACACCAGCGATGGTCGCTGTCACCTGGACGACGGCATGTACAGGAGCAGGGGAGAACCT
Seq A exon
GTGAGAACTCTTACTGCCCTGGCAACCTCTGGGGCTCAACCCTGCATGACACAAAACGGGGATGGGGGGAGCAGGAAAAAACTTACAAACTTGCCCCCCATGCATGGGTATGTGTGTGTGAAGAAGGGCCAGGGTCACACAGGGTCACACAGGGCCACCTCTCCAGAGCCTTGGATACCTTTTCCCAACCTAAGCAACAAATTCGAGAAAAACTTCATGTTAGGTCTCTGGATATGGGCCTTGGGACAGAACACAGTGGTAGGACACTAAGACACACTGAAGAGAGACTCCAGCTGTTCTGCAAAACCAGTGGGAAGTCACAGAGAACTAGAGATGAGCTAGAAGGTGTCAAGTAGGGCGACCCTGTAACCACACCAAGAGGGCAAGTCCCTAGGGGACTGGGTGGGCTGGGAGGAAGAACTTGTGCATGCAAGCCAAAGCAGAACTAATGGGAAGTTTGGAGAGACTGGAATGGAGGACAATGGAGGTCTCCTACCTAGACAGCTGTGGGTCCCCGGGATATTGGCTAGGATGAAAGGTAGCAAGGGGCTGCCAGGAAGGATTCGAAGGACCCTGGGCCAGCACCAAAAGGCCAAGCACATTGCAGTTTCTGGTGTTTTTTAACTGTCTTTCAATATCATCCATTTCTGATTAATTCTGTTTCACATACTTAAACATCTTGTTCAGAGAAAGTACTGCCACGGGACAAGGACAGCCCTGACTTGAGCTGACACCAGAGTCCTCAGAACGCTAGGCACTTTCTTTGGATGGGCATCCTGACAAAATGTCTCTTCTCCACAG
Seq C2 exon
GACTACCAGTCAGTGGTCCAGCTGGCAAGCAAACTGGCTGAAAACAACATCCAGCCCATCTTCGTGGTGCCCTCAAGGATGGTGAAAACCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000157:ENSMUST00000000161:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.221 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(20.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(12.6=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:
GGAGAAATCGGCTGGCGC
R:
GGTTTTCACCATCCTTGAGGGC
Band lengths:
246-1047
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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