MmuINT0086150 @ mm9
Intron Retention
Gene
ENSMUSG00000029475 | Kdm2b
Description
lysine (K)-specific demethylase 2B [Source:MGI Symbol;Acc:MGI:1354737]
Coordinates
chr5:123329254-123329661:-
Coord C1 exon
chr5:123329498-123329661
Coord A exon
chr5:123329416-123329497
Coord C2 exon
chr5:123329254-123329415
Length
82 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGC
5' ss Score
8.69
3' ss Seq
TTCTGCTTCTCGTCTCCTAGGGC
3' ss Score
9.91
Exon sequences
Seq C1 exon
GTGCTGCGATAAGCGGTTGTGGACCCGCATCGACCTGAACCGCTGCAAGTCCATCACACCCCTGATGCTGAGCGGTATCATCCGGCGACAGCCTGTCTCCCTTGACCTCAGTTGGACCAACATCTCCAAGAAGCAGCTGAGTTGGCTCATCAACCGGTTGCCTG
Seq A exon
GTAAGCTTTGGGAAAGGATCCCAATTACGCAGTAATGATGGCCTGGATCGTCACCTGACTCCTTCTGCTTCTCGTCTCCTAG
Seq C2 exon
GGCTCCGAGACTTGGTGCTGTCAGGCTGCTCATGGATCGCTGTCTCAGCCCTCTGTAGCTCCAGTTGTCCATTGCTCCGGACCCTGGATGTCCAGTGGGTAGAAGGACTAAAGGATGCCCAGATGAGGGATCTCCTGTCTCCACCCACAGACAACAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029475-Kdm2b:NM_013910:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.200
Domain overlap (PFAM):
C1:
PF0064628=F-box=PD(20.7=21.4),PF138551=LRR_8=PU(41.1=41.1)
A:
NA
C2:
PF138551=LRR_8=PD(57.1=58.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTTGGCTCATCAACCGGTT
R:
GGTGGAGACAGGAGATCCCTC
Band lengths:
171-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: