MmuINT1031946 @ mm10
Intron Retention
Gene
ENSMUSG00000027109 | Sp3
Description
trans-acting transcription factor 3 [Source:MGI Symbol;Acc:MGI:1277166]
Coordinates
chr2:72978898-72979632:-
Coord C1 exon
chr2:72979487-72979632
Coord A exon
chr2:72979030-72979486
Coord C2 exon
chr2:72978898-72979029
Length
457 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AACCCGCCCATCGCGGGTAGGAC
3' ss Score
4.13
Exon sequences
Seq C1 exon
CTCCCGAAAAGCCCGTGAAACAAGAGGAAATGGCTGCCTTGGACGTGGACGGCGGCGGAGGCGGCGGCGGCCACGGCGAGTATCTACAGCAGCAGCAGCAGCAACAGCAGCAGCACGGAAACGGCGCGGCGGCGGCGGCGGCCCAG
Seq A exon
GTGAGGAGCGGCTGAGCGCGGCCGGGCTCCCCGCGCGCCGCTTTCTCCTCCCCTCGCCCTCCCTCCTTCCCTCCCTCCCTCCCGCGCGCGCTCGCCCGCCCCTCCCCCGCCCCGGGAGCTGCCCGCCCGAGGCGCCAACGCTCCGACCCCGCCCGCGCGCCCCCGCCCGCCGCCTTTTTGTGTGTGTGTTTGTGTGTGTGTGAGTGTGCAAGTGTGCGCGCCCTCCCGGGTGGGATCCGGACGGAGGGAAGAGGCCCGGCGCGCAGCCGTCCGCCGCGGGCCACCGAGCGCGGGGAGAGGCGCCGCAGACCCCGGAGGAGGAGGAGGAGGAGAGCGCGGGGCCGGGTTGGCGGCGCGGCCAGGCGCGGAGCGAGCCGTACTTCCTGTGCGAGCGGGCCCGGCCCTAACCGCCACCCCCCTCCCTGTCTCCCTCTCTGAACCCGCCCATCGCGGGTAG
Seq C2 exon
GACACTCAGCCGTCACCGCTCGCTCTGCTGGCCGCTACCTGCAGCAAGATAGGGCCGCCATCGCCGGGCGACGACGACGAGGAGGCGGCCGTTGCCGCCGCCGCCGGGGTCCCCGCCGCCGCCGCCGGAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027109:ENSMUST00000102689:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.841
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGAAAAGCCCGTGAAACAAG
R:
CGCCTCCTCGTCGTCGTC
Band lengths:
230-687
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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