MmuINT0086128 @ mm9
Intron Retention
Gene
ENSMUSG00000029475 | Kdm2b
Description
lysine (K)-specific demethylase 2B [Source:MGI Symbol;Acc:MGI:1354737]
Coordinates
chr5:123437671-123438542:-
Coord C1 exon
chr5:123438476-123438542
Coord A exon
chr5:123437816-123438475
Coord C2 exon
chr5:123437671-123437815
Length
660 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGT
5' ss Score
8.29
3' ss Seq
CTCTGGTTGGGTCCCCGCAGCGT
3' ss Score
7.45
Exon sequences
Seq C1 exon
GTGGTGGGGGAGTCTCCTTAGGAAGTGAGTGTGCGCGCGCGCTCGTGGGGAGATGAGGCAGCTGCTG
Seq A exon
GTGCGTTTTGGGGTCTCTGATAGAAGCTTTGTGGTGGGCTGGCTGCCTCTCTCCCCCCACATTCTTAACCTCCTCCCCTCCCCTCCTCTTCTTGCACTAGCGGTCGGTCGGCGGGGGCCGTTAGGGTCTCAACCCTTCCGTTTCAGCTTTCCAGCTTTTCTGTAGCTCGGGAGCAGCTCCAGCCTTAGTAATGCCGCCGGCCCTGGGTTCCGGCTTCCCGGGTTGGCCGCCGTGGCCGCCAGGGCTGCTGTTACCGCGGAGCCGGTTGCTGCAGCGGCTTCTCTCGGGGCCTACATCTGCCCCGCCAGCTCATACCCGGAGCCCCCTTCAGGGGTTACATAACCAGGCTCCCAGTCGAGTGGGCAAAGCTTAGCACATCACTTGGCGTGGGGGCAGAGGAAAGCCCCCAAATACCATTTCCATAGCTTCCAAAGATGCAAGAAGGGATTGCTTCGTTTAAGGGCAGTCGGGCCTTGGGGGTGTGAGCCCCTTTTTCTGCTTTCCAGCATCTTTGGCATTTGCGCAAAGTTGCTCAGATTGCAATGCTGGGGTGCAGTGGGCGCGCGACTCTTGCACCTGTTCTTGGTGGGCCCAGGGTGAGAGGAGACCCCCCCAAGTCCTCTCAGTAATGTCCGGGGTTCTCTGGTTGGGTCCCCGCAG
Seq C2 exon
CGTGCGATTGACCGCCAGAGATACGACGAGAACGAAGACTTGTCGGACGTGGAGGAAATTGTCAGCGTCCGTGGCTTCAGCCTGGAGGAGAAGCTACGTAGCCAGTTATACCAGGGGGACTTCGTGCATGCTATGGAAGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029475-Kdm2b:NM_001005866:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.049
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTGGGGGAGTCTCCTTAG
R:
GCCTTCCATAGCATGCACGAA
Band lengths:
208-868
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: