MmuINT1021659 @ mm10
Intron Retention
Gene
ENSMUSG00000029475 | Kdm2b
Description
lysine (K)-specific demethylase 2B [Source:MGI Symbol;Acc:MGI:1354737]
Coordinates
chr5:122881637-122882224:-
Coord C1 exon
chr5:122881964-122882224
Coord A exon
chr5:122881751-122881963
Coord C2 exon
chr5:122881637-122881750
Length
213 bp
Sequences
Splice sites
5' ss Seq
CGAGTACGA
5' ss Score
3.61
3' ss Seq
CCTCTTCCCACTCCCTTTAGGCC
3' ss Score
11.05
Exon sequences
Seq C1 exon
CAAAAGCGTGGCCCTGGCTTTAAGTATGCCTCCAACCTGCCTGGCTCCTTGCTCAAGGAGCAGAAGATGAACCGGGACAACAAGGAAGGGCAAGAGCCTGCCAAGCGGAGAAGTGAGTGTGAAGAGGCTCCCCGTCGGAGGTCAGACGAGCACCCCAAAAAGGTGCCTGCAGATGGCATCCTCCGCCGAAAGTCTGATGATGTGCACCTGAGGAGGAAGCGGAAATACGAGAAGCCCCAAGAGCTGAGTGGACGCAAGCGA
Seq A exon
GTACGAACTGGGAAGGCCTGGGTAGCAAACAGAAGGGTGGTGTGGCTGGTCTTAGGTGTGGGGTGTGGGGTGGGGACCAGGGAAAGTTAATGGGAACAACTTGGGATCCTGGCCTCTTAAGAGCTGCCCTGAGCAGGTCACCCAAATCCTGAGAGCCTGGCCCAAAAGAAAGAGAAAAGCCAGCGAAGTCACTCCTCTTCCCACTCCCTTTAG
Seq C2 exon
GCCTCGTCGCTTCAAACGTCCCCCGGTTCCTCCTCTCACCTCTCGCCGAGGCCCCCTCTAGGCAGCAGTCTCAGCCCTTGGTGGAGATCCAGTCTCACTTACTTCCAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029475:ENSMUST00000046073:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.998 A=NA C2=0.868
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCAGAAGATGAACCGGGAC
R:
AGACTGGATCTCCACCAAGGG
Band lengths:
299-512
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