MmuINT0150757 @ mm10
Intron Retention
Gene
ENSMUSG00000025323 | Sp4
Description
trans-acting transcription factor 4 [Source:MGI Symbol;Acc:MGI:107595]
Coordinates
chr12:118300699-118301440:-
Coord C1 exon
chr12:118301227-118301440
Coord A exon
chr12:118300809-118301226
Coord C2 exon
chr12:118300699-118300808
Length
418 bp
Sequences
Splice sites
5' ss Seq
GCGGTACGT
5' ss Score
10.27
3' ss Seq
GTGGTGGGGGGTTGTTGCAGATC
3' ss Score
3.99
Exon sequences
Seq C1 exon
GAGTCAGCCGGGCTCGGGCGGAGAGAGGAGCTGCTACGCCACAGCCCAGCGGCGGCCATTCGCGGAAAAAGAGGCAGAGCCTGTGCCAGCTACAGCCTCCTCCGAGCCACCGCGGGCGGGCGGGACCGGCCTCTCCTCCCGCCTCGCCCCCACCCCCACCCACCTCTATCCCAGTGTCTCTGAGAGGGTTTGTCCTGTTAATGCGGGATGAGCG
Seq A exon
GTACGTATTCTCCACCCCCCTCGGTCTCCTTCACCGCCTCCCTTCGTCCCTCCCTCCCCAGACCCTGCTCGCTTCCCCCTCCCCCGGGGCCGCCGAGATGCTGGAAGGGGAGGAGGAGAGGGCGGGAGGGAACCAGGGGGAGGGAAGGAGGGCTGTGTTTTGTCTTAATGTCTGAGCTAGAACAACCTCCTTCTGGGTGTTGCTCTGGAGCCTATGGGTCGGGTTTCAAACCACGTTTCGTGAGAGCCCCCTCCTCCCTACCCTCCTTCTCCCCCACCCCCTGCCGGTGTGCACGGATCGCGGGTTTACGGAGATTAATGTTCAAGAGGAGGGAGGGGGAAGAAGGGAGGAGAACGAATAATAATAATCCTAATAACCTGTTGTCGTGTGTGTTGGTGGTGGTGGGGGGTTGTTGCAG
Seq C2 exon
ATCAGAAGAAGGAGGAGGAGGAGGAGGCGGCAGCGGCGATGGCTACAGAAGGAGGGAAAACCTCTGAGCCAGAGAATAACAATAAAAAACCCAAAACCTCAGGCTCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025323:ENSMUST00000026367:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGGGCGGAGAGAGGAG
R:
CTGGGAGCCTGAGGTTTTGG
Band lengths:
312-730
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