MmuINT0086145 @ mm9
Intron Retention
Gene
ENSMUSG00000029475 | Kdm2b
Description
lysine (K)-specific demethylase 2B [Source:MGI Symbol;Acc:MGI:1354737]
Coordinates
chr5:123331973-123332497:-
Coord C1 exon
chr5:123332411-123332497
Coord A exon
chr5:123332234-123332410
Coord C2 exon
chr5:123331973-123332233
Length
177 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
CTCTCTTTTTGGCCTACAAGCAA
3' ss Score
3.03
Exon sequences
Seq C1 exon
ATTAAGGAATCGGAGGGTGTGGTCAACGATGAGCTTCCCAACTGCTGGGAGTGTCCGAAGTGTAACCATGCCGGCAAGACCGGGAAA
Seq A exon
GTGAGTGCGGACTCCAAGTCCCTGGTTGGGTCGGGTTGGCAGAAAGGGATGGGCTGGGCTTTGCCAGGACCAGCCTGTCCCCAGTTGTCAGTCAGGTAGGGTGCAGCGGGCTGAGAAAAGAAGAGCAAGTTCAAAGATATACAGTTGGATTGTTGTTCTCTCTTTTTGGCCTACAAG
Seq C2 exon
CAAAAGCGTGGCCCTGGCTTTAAGTATGCCTCCAACCTGCCTGGCTCCTTGCTCAAGGAGCAGAAGATGAACCGGGACAACAAGGAAGGGCAAGAGCCTGCCAAGCGGAGAAGTGAGTGTGAAGAGGCTCCCCGTCGGAGGTCAGACGAGCACCCCAAAAAGGTGCCTGCAGATGGCATCCTCCGCCGAAAGTCTGATGATGTGCACCTGAGGAGGAAGCGGAAATACGAGAAGCCCCAAGAGCTGAGTGGACGCAAGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029475-Kdm2b:NM_013910:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.998
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(12.1=24.1),PF0062824=PHD=PD(35.4=79.3),PF0030115=Rubredoxin=PD(60.0=93.1)
A:
NA
C2:
NO
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:
GAATCGGAGGGTGTGGTCAAC
R:
TTTTTGGGGTGCTCGTCTGAC
Band lengths:
242-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: