MmuINT1030987 @ mm10
Intron Retention
Gene
ENSMUSG00000054766 | Set
Description
SET nuclear oncogene [Source:MGI Symbol;Acc:MGI:1860267]
Coordinates
chr2:30069518-30070355:+
Coord C1 exon
chr2:30069518-30069631
Coord A exon
chr2:30069632-30070184
Coord C2 exon
chr2:30070185-30070355
Length
553 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
GAATGTTTGTCTTCATTTAGGAT
3' ss Score
8.71
Exon sequences
Seq C1 exon
TATTTTGATGAAAATCCTTACTTTGAAAATAAAGTTCTCTCCAAAGAATTTCATCTGAACGAGAGTGGTGACCCGTCTTCAAAGTCCACCGAAATCAAATGGAAATCTGGAAAG
Seq A exon
GTATTTTGTATATCATGGCTGGTTTGCACACAGTGCCTTAGATGCTGGGTAACTATGCAGAGATTCCAATGAACAGAGGAATCGGGATAGGAACCCCACACTGCATTTGTCTTTGTGCTGCATCGTCTACAGTATCTGCTCAGGCTTTCCGGCTCCATTTTTGGAGACATAGGTTTGAATTGGAGATTTAGGGTGGAAGTCATTTAATTTTTTTATTTTTTATTTTATTTATTTTTTGTTTTTTTTCAAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAGCTCACTTTGTAGACCAGGCTGACCTCCAACTCAGAAATCCGCCTGCCTCTGCCTCCCGAGTGCTGGGATTAAAGGCGCCTAGTGGAAGTCATTTTATGAAGTCAGACAGTTGATAGGTGTATCCTATGAAAGCAATTTACAAGACTTTACCAAATGGACATTTTATAGTTCTTAGTAATATGAACTTCTTCACTGGTCTTTGTTGTACTTTATGTGGGGTTTGGGTATTATGGGGAGCTAATAAAGGGAATGTTTGTCTTCATTTAG
Seq C2 exon
GATTTGACAAAACGCTCAAGTCAAACGCAAAATAAGGCCAGCAGGAAGAGGCAGCACGAAGAGCCAGAGAGCTTCTTTACCTGGTTTACTGACCATTCTGACGCAGGTGCTGATGAGTTAGGAGAGGTCATCAAAGATGACATCTGGCCAAATCCCTTGCAGTACTACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054766:ENSMUST00000102866:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.406 A=NA C2=0.898
Domain overlap (PFAM):
C1:
PF0032817=His_Phos_2=PD(4.2=42.9),PF0095613=NAP=PD(10.8=85.7)
A:
NA
C2:
PF0095613=NAP=PD(21.7=95.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTTCTCTCCAAAGAATTTCATCTG
R:
CAGGTAGTACTGCAAGGGATTTGG
Band lengths:
254-807
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