MmuINT0086133 @ mm9
Intron Retention
Gene
ENSMUSG00000029475 | Kdm2b
Description
lysine (K)-specific demethylase 2B [Source:MGI Symbol;Acc:MGI:1354737]
Coordinates
chr5:123432786-123434549:-
Coord C1 exon
chr5:123434471-123434549
Coord A exon
chr5:123432833-123434470
Coord C2 exon
chr5:123432786-123432832
Length
1638 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TTCTCTTTTTTTTTTTCCAGGAT
3' ss Score
12.15
Exon sequences
Seq C1 exon
ATTTTAACTATGAGTACGTACAGAGAGAAGCTCTCAGGGTCCCCCTGGTTTTTCGGGACAAGGATGGACTAGGGATCAA
Seq A exon
GTAAGTGCTGGAATTCACCCCTTCTTCCTCCATCTCCCTCCCTATCACAACTCCCAGCTTGGGTTGGCTTCTCCTGCCTTTCTTATGCCACCACTTAGCATTTCCAAGAGAGGAGGACTTTGCCTAAAATCTAGGAACAGCTCCTTCTCTCTCGGTTCAAGGCCCACTGGAGAAGAAAAGCTGCTCTTTCGGGAATTTGGGAATCCTAGGGCATTTAAGCAGTGATGACCTCCCCCACCCACATCTAGTCTATCCCGGTCACTTTAAGCAGTGATGGATCTCCTGCTGCTGCTTTCTGGTCTATTCTGGTCCCACACAGCAACTTCCTGCTGAGCATTGCTTGAAGCGTGGGTTGTGAAGGGACTGACCATCTTCTGCGCCTAGACTAGGGTACCAGGATGCATGTTTTCTGAACATATTCCTAGTGTGGGGGAAATGGGTCTCTTTCTGTGATGGGTGTGTGTTTCTTCTCCTTATACCCCCTTGACTCTGTCTATCTTCTATTCTGGAAGAGAACTGCAGAGCTGCCCAGGGTTCTGGGTTGGGGAGAGATGGAGGCAAGCTGAAGAACAGGTCCCACTCCTTGGTCAGGGATAAGAAAGGGGTTTTAGGCTGCCTCCCACTCTAGCCTCTACTGCTAGGCTTGCTCAGGTACTTCCTACCAGGGTTATGAGATGTTCAGCATCTTCCTCGCTGGCTGGCCTGGAGTTTGCTGTGTAGACCAGGCTGGCCTTGAACTCATAGAGATCTTCCTGCCTCTTTCTGAGATTAAAGGCATGTGTTACCTGCCTTTCAGCATCTCTGGTTTCTGTCTTGTTTTTATGTTTTGAGAGCCCAGGCTAGCCTCAGACTTAACTCTGTGGCGGAGGATGACTTTGAACACCTGCTCCTCCTGCCTTCCCTTCCCAAGAGCTGGGATCATAGGCTTATGCCACTGTCCATTAAGGCGGGACATGCCCTTGTCTGGCTCTGTCTGTACTCATTTATTTATTTATTTATTTATTTATTTATTTATTTATTTATTCAAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTAGAACTCACTTTGTAGACCAGGCTGGCCTTGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGTGCCACCACACCCAGCTCTTTTTGAGATAGTGTATTGCTTTGTAGCTGAGGCTGGCCCAGAACTCACAATCTACCTGTTTCAGTGTTTCAAAATAACCCTTTTAGTTTCTCCCACAGTCCGTATAGCTATATGGAAAATATTTTCTAAAGGGACAGAAACACCCTAAATTAAGGCAGGTGTCTGGTCCCTGACATACCACACTTCAGTTTGTCCTGCAGTAAGTTGACCAGTGATGTGCCATCCTCCTCTGAGGCTCAGCTTGAGTCTTTTATGGTAGGAAACCTACTCTGTGACCTCCCTTGGGATACCTACCTGGTCTACCAGGTTTGCTCTCTGGGTTTCTCTCATATTCTCAAGCTTAGTACAAGGAACCCCTTTTTTGAAAAATTGACTCAGGGTAGAGTCTAGCTCTGTGGGTTTTTTTTTTTCAGTCTGTCTGTCTGTTTATTTATTTTTTTAACCAAATATCCACGCTTCTCTTTTTTTTTTTCCAG
Seq C2 exon
GATGCCAGACCCTGATTTCACAGTCCGAGACGTCAAACTCCTGGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029475-Kdm2b:NM_001005866:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF136211=Cupin_8=PU(0.5=3.7)
A:
NA
C2:
PF136211=Cupin_8=FE(7.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: