MmuINT1021663 @ mm10
Intron Retention
Gene
ENSMUSG00000029475 | Kdm2b
Description
lysine (K)-specific demethylase 2B [Source:MGI Symbol;Acc:MGI:1354737]
Coordinates
chr5:122879245-122879652:-
Coord C1 exon
chr5:122879489-122879652
Coord A exon
chr5:122879407-122879488
Coord C2 exon
chr5:122879245-122879406
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:ENSMUST00000046073:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.203
Domain overlap (PFAM):
C1:
PF0064628=F-box=PD(20.7=21.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
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]
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