MmuINT0083705 @ mm10
Intron Retention
Gene
ENSMUSG00000001507 | Itga3
Description
integrin alpha 3 [Source:MGI Symbol;Acc:MGI:96602]
Coordinates
chr11:95044474-95046590:-
Coord C1 exon
chr11:95046449-95046590
Coord A exon
chr11:95045764-95046448
Coord C2 exon
chr11:95044474-95045763
Length
685 bp
Sequences
Splice sites
5' ss Seq
CGGGTAACA
5' ss Score
5.3
3' ss Seq
CTCTTCTGCCTAAACCCCAGTGT
3' ss Score
4.78
Exon sequences
Seq C1 exon
TGCGGCTTCTTCAAGCGAGCCCGCACTCGTGCCCTGTATGAAGCTAAGAGGCAGAAGGCTGAGATGAAGAGCCAGCCGTCAGAGACAGAAAGGCTGACCGACGACTACTGAGGGGTCAGCCCCCCTGCCCCGGCCCACCCGG
Seq A exon
GTAACATGGCCTATGAATCTCCTCTCCAAATCCCCAGCTGCCTGGGGCCTCTGATTCTGTCCTGTCTGCTCCTCTTGCCTTGGGGTCTGCTTGGATCTCAACTTGTCTACCACCCCAAAGTGCAGGCCATTCTGGTTTTCCCCCGTGCCCCCACATCCACCTGGCTCTCAGGAGCTTAAAATCCCAAGAGTATGCTGGGAAATCCTCCCAATGAGCGTGCTGCTTTCTGGAGGACTGGAAAAGAGAAATAGTCAAGGCTAGACCCTGTCTCTGTCTGATCACCAGGCATGGCCACAGTTACTCTAAGTCCTCTCTCCTCCCACAAGCAAGGAGGGGGCCAAGGGAGGCCAATCTCTTTTGTCTTGAGTCCCACCATCTCCCTAGGATAACTGTCTTACCCACTTCTAGTACTGGCCATTGAGACCACCGCATCTTCCTGGTCCACAATCTCTGCAGCCGCTTAGTCTCCACTGCCTCTGCTCTCCTCTGTGTCTTCCTCAGCCCTTCCTTCCTCTGGGCCTGGGGTGGGGATGTTCATCTGCCCATTTCATACTGAAGTTGGGATGTTGGAGTTATGGCCTGCTGTAAGGACCATAGGGGTGGGGGCGGTGGAGGTGGGGGGTGCAGACCTTCTCCTGCTTGAATTCTGGATACTGACACAATTTCTCTTCTGCCTAAACCCCAG
Seq C2 exon
TGTGACTTCTTTAAGCCGACCCGCTACTACCGGATTATGCCCAAGTACCATGCAGTGCGTATCCGGGAGGAGGACCGCTACCCACCTCCAGGGAGCACGCTACCCACCAAGAAGCACTGGGTCACCAGCTGGCAGATTCGGGACCGATACTACTGATGCCCTCCCCGACAAACCTTCCGGCGCTCCCTTCCTTCCTATTTATCATAAATTATGACTCCGACAGTCCAAAGGGGGCCACGCCCTTGGCTGGCACCAGCAGGCTCAGGCATCTATCCCTCTTCAGTGCAGGCATGTTTTCTGGGGCCCTGGAATCTCCTTCAAGACCTTGCAATGCTGAGCCCAGCACAGCCCTTGCACAGTGGACACACACACAGGGCCTACTGCTAATGGCCTGCTCTGATATATCATGGAGGGTGCCGTATCCAAGTCTCTGTCTGTGCCAAAACCAAGCCAAAGCGCCTCTACTGGGAGACAGGAGGAAAAGGTCCCTGATGTGGGGACACGGCTCCTCCACACTGAATCCCCCTTGAGCCATTGTCAATGGATGGAGTTTACTGTCCAGAATAAAACTACTGATGCGGAGGAGACAGTCAGGCTCAGCTGCAATTCCTGCCAGGCACTGGAGCGCAGGGCTACACTAAAGGCTACCCAGGGGATGTTCTTACGACCTGCGTGCTCAGACGCAAGAGCAATGAACTAGAAAGCAGGTCGCCGGAATGGGCTTTATGGGTGCATCTCTAAAATCGTGGCTACAGAGAGAGCTGGCAAGAAACGCAGCCCGAAGGAACAAAGAGAGACCGTGGGCAGCCTGGACGCACACACTGTGCTGGGACTGACCTGGAGCATGGCGGCATCCTTCAGAGAGCAGGGTCCTGGCGCAGCAGACATTGGTAGGATGAAGAGGAGAGACTTCTGATCCATCCTGACCACCTCAGCCTGGGCAAGGCCTGGAGATCCCCACGAGACCACGTGGGGTGTGATACTTGAATGTAGCATGGCAGGGGAGGGCCCAGCCCCTGCCCCAGTTGGCCAGACTTAACTCTGCTCCCTTGACCACAGAGATGAGATTCTGAGCTGCCTGTGGCTTTCTTCCCCTCCCCCAGGGGCTGCATCCCCATTCTAGCAGTGGAGGCTGATTTCCCAGGTCCTCTCCCCATCCCGGTCCACAGGCAGGCCCACTCCCCAGCTCTGTCCCCTCCACCCCACGGTACTATAACAACTTCCCCGATCCTGTGCCTTCTTTGTATATGGGCTTCTCACTAAAATAAATAAACTGTTCCCAGTTTGTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000001507:ENSMUST00000001548:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.306 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAAAGGCTGACCGACGACTA
R:
TGCCTGCACTGAAGAGGGATA
Band lengths:
347-1032
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