MmuINT0142093 @ mm9
Intron Retention
Gene
ENSMUSG00000054766 | Set
Description
SET nuclear oncogene [Source:MGI Symbol;Acc:MGI:1860267]
Coordinates
chr2:29925038-29925875:+
Coord C1 exon
chr2:29925038-29925151
Coord A exon
chr2:29925152-29925704
Coord C2 exon
chr2:29925705-29925875
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-Set:NM_023871:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Rat
(rn6)
No conservation detected
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]
Other AS DBs: