MmuINT0083708 @ mm10
Intron Retention
Gene
ENSMUSG00000001507 | Itga3
Description
integrin alpha 3 [Source:MGI Symbol;Acc:MGI:96602]
Coordinates
chr11:95062553-95063221:-
Coord C1 exon
chr11:95063135-95063221
Coord A exon
chr11:95062764-95063134
Coord C2 exon
chr11:95062553-95062763
Length
371 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGC
5' ss Score
8.72
3' ss Seq
TCCCCCCCCCCCCATCCCAGGGT
3' ss Score
9.1
Exon sequences
Seq C1 exon
GAAACAGCTACATGATTCAGCGGAAGGACTGGGATTTATCTGAATATAGCTACAGGGGCTCAGAGGAGCAAGGAAACCTTTATATTG
Seq A exon
GTAAGCCCCGTGCTGGTGGCCTACTGAAGAATGGGAGGAGCCACCTTGATCCCTAACACACTGGCCCTTTTACCCCTGGTGTGTGCTGTGAGGTGCAAGTACAGTGCAGATGTGACCTGAGGCATTTTGTTCAATTAGCACACACTTATTGAGCACCGCCTGCATGCGAGACTCTGCACATGGTTTAAGCTTTCGGACGCAAAGTTCCATCAGGAAGCTCAAAACCCAGTGTGCAAGGACTGGATCTGTTACTCGACTTGGCCTAGAGGAATAGAAAAATAATAGAGGGTGGACAATGAGGATAGGTTCAGTATTGAAGGGGATAGATTTACTGGGGCTTTGATTGAACACTCCCCCCCCCCCCATCCCAG
Seq C2 exon
GGTACACGGTGCAGGTAGGCAACGCCATCCTACATCCCACGGACATCATCACTGTTGTGACGGGTGCCCCACGGCACCAACATATGGGCGCTGTCTTCTTGCTGAAGCAAGAGTCAGGTGGAGACCTGCAGAGGAAGCAGGTGCTGAAGGGCACGCAGGTGGGCGCTTATTTTGGCAGTGCCATTGCCCTGGCAGACCTGAACAATGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001507:ENSMUST00000001548:5
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF135171=VCBS=PU(6.7=7.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAGCTACATGATTCAGCGGA
R:
CCATCATTGTTCAGGTCTGCCA
Band lengths:
295-666
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