MmuINT0086117 @ mm10
Intron Retention
Gene
ENSMUSG00000054611 | Kdm2a
Description
lysine (K)-specific demethylase 2A [Source:MGI Symbol;Acc:MGI:1354736]
Coordinates
chr19:4320152-4321056:-
Coord C1 exon
chr19:4320898-4321056
Coord A exon
chr19:4320368-4320897
Coord C2 exon
chr19:4320152-4320367
Length
530 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TTCTTTTCTTGCCTGTACAGGTC
3' ss Score
11.42
Exon sequences
Seq C1 exon
GATTAAAAGACCTCCTCCTAGCAGGCTGTTCCTGGTCTGCAGTATCTGCCCTCAGCACTTCCAGCTGCCCGCTTCTCAGGACCCTTGATCTTCGGTGGGCAGTAGGAATTAAAGACCCTCAAATTCGGGACTTGCTGACTCCACCCACAGATAAGCCAG
Seq A exon
GTATGTTCTGGGTCTGCCTCACTGACCTATCTTGACCTTTTTTTTTTTTTTTCCCTTTAGATGGAGCTTGAAACTTAAGGTCTCAGAATTAACAAAGCTAAAATACAGTGGTAATCCATGTACACGTGCTGGTTATGTACAAGCAAATAACTCAGCAAACAAACAGGAAGAAGTCCATTCTACACATTTTAAGAATTTGGTCCCAGAGAGAATAGACCTGATCAAATCTTGTAAGACTTCTGAGTCAAAGGAAGACATTAAAAGTTTTTCAAATGCTGGATGGTAACAGGATCACAGGACTATGAGGAAAGAAGGCCCTTTTCTACACACATCACTTTGGAAGTGAGGCATACACTCTGGCACTGAGAGGACGGAAAACTTAGCTTGTTCACTCCCTACAGGAAGGGTTGAGTGTGGGCAGTTCTGCTTAACCCTGTCAAGGGGGTCCTAACCAGTGCGTAGGTGCTTCCACTTGGGGCTCTAGTCAAAAATTCAAAGTTTCAATCTAAGTTCTTTTCTTGCCTGTACAG
Seq C2 exon
GTCAAGACAATCGAAGCAAACTCCGGAACATGACTGACTTCCGGCTGGCAGGCCTTGACATCACAGATGCTACTCTCCGACTCATCATTCGCCACATGCCCCTTTTGTCTCGACTTGACCTCAGTCACTGCAGTCACCTTACAGATCAGTCCTCCAACCTACTAACTGCTGTCGGGTCTTCCACTCGATACTCCCTTACAGAGCTCAATATGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054611:ENSMUST00000047898:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.139 A=NA C2=0.082
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:
AAAGACCTCCTCCTAGCAGGC
R:
ATCGAGTGGAAGACCCGACAG
Band lengths:
343-873
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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