MmuINT0086141 @ mm9
Intron Retention
Gene
ENSMUSG00000029475 | Kdm2b
Description
lysine (K)-specific demethylase 2B [Source:MGI Symbol;Acc:MGI:1354737]
Coordinates
chr5:123328444-123329415:-
Coord C1 exon
chr5:123329254-123329415
Coord A exon
chr5:123328663-123329253
Coord C2 exon
chr5:123328444-123328662
Length
591 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ACTCCCATCTGTCCCAACAGGTC
3' ss Score
12.18
Exon sequences
Seq C1 exon
GGCTCCGAGACTTGGTGCTGTCAGGCTGCTCATGGATCGCTGTCTCAGCCCTCTGTAGCTCCAGTTGTCCATTGCTCCGGACCCTGGATGTCCAGTGGGTAGAAGGACTAAAGGATGCCCAGATGAGGGATCTCCTGTCTCCACCCACAGACAACAGGCCAG
Seq A exon
GTGAGTTGCCAGGCTGGGGCTGTCCCCTAAGGATCTGTCTCTTGGACCTGAGGTGACCAAGCTACCCTGTTCAATTTTTTTTTGGCTATCCGCTTTCTCTGGCCTCAGAGATGAGGGGCAGAATGTTCTTAGCTTGCTTTGGGTGTGAGCGTCAGCTGCCTGGGCGCCTCCCAGTCCCCCAGCCAAAGCTCAGATGGGTACAGGTATAAGGTGAGGGTCACAAGAGACAAGGACAGTGAGACATTTCTGAGCCAGCTGAACTATTATTATTTTTAAATGAAATTTAGGCTCTCCTATTTTCTGAATTTTCTTCATGGTAAAGGCAGAGAATAGCTTGGACTTGGTACTGCTAGAATGAAGTATAGTCTAAACAACTTAACACAGATCTTCCAACCATGTTTATGAATTCTGATTTCTCTGGAGAATCTAGAAACACAAATTCTGATGTGGAAGCTTCTAAGGATGAGATTCTGGCTTTGGCGTAGGGCACGCTTGAGGCCTATGGGGTTTAGAGTAACAGATCAACAGCAGGACGTTAGTTATGTCCCTGCTCAGGTTGATGGGTTGCCTCACTCCCATCTGTCCCAACAG
Seq C2 exon
GTCAGATGGACAATCGGAGCAAGCTCCGGAACATTGTAGAGCTGCGCCTAGCTGGCCTGGACATCACAGATGTCTCCCTGCGGCTCATTATTCGCCATATGCCCCTGCTCTCGAAGCTCCAACTCAGTTACTGTAACCACATCAATGACCAGTCCATCAACCTGCTCACTGCCGTCGGCACCACCACCCGAGACTCGCTGACAGAGGTCAACCTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029475-Kdm2b:NM_013910:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.200 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF138551=LRR_8=PD(57.1=58.2)
A:
NA
C2:
PF138551=LRR_8=PU(21.4=12.2)
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:
GCTCATGGATCGCTGTCTCAG
R:
TGACCTCTGTCAGCGAGTCTC
Band lengths:
345-936
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: