MmuINT0086108 @ mm10
Intron Retention
Gene
ENSMUSG00000054611 | Kdm2a
Description
lysine (K)-specific demethylase 2A [Source:MGI Symbol;Acc:MGI:1354736]
Coordinates
chr19:4345518-4348761:-
Coord C1 exon
chr19:4348646-4348761
Coord A exon
chr19:4345645-4348645
Coord C2 exon
chr19:4345518-4345644
Length
3001 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
ATTATTCTTTTTCTGTGTAGGTT
3' ss Score
9.5
Exon sequences
Seq C1 exon
GTTGGATTCATGCTGTGTATACTCCTACAGACACATTAGTGTTTGGAGGCAATTTTTTGCATAGCTTCAACATCCCCATGCAATTAAAGATATACAGCATTGAAGATCGAACACGG
Seq A exon
GTAAGCAATGTAACAATTATATGTGTAGATGTTTCCCCATTTAAGGCAGATGTTAGATGAACATGGTTACACTTGCCTCTCATCTTTGAAGCACTCAGGAACAGGAAGATTGTGAGTTTAAGGGAAGCCTGGCCTATGTAGCAAGACCGTGTCTTAAAGAAAAAGATGGGTTTAATAAAGAGATTGATGGGATGAGATGGCTTAGCAGGTAAAGATACTGATGCTATTTGATAACAAAGTTCAGAATGAACGTGGTGTAAGGATAGAATTGACACTTGCTGGTTACCTTCTAATCTTCATATTCATGCATCTAGTGCTATCCTCCATCCCCAACAAATGACTTAAATGAATCAGATAGGGATTCGTGGATAATTTGTCACAATTTCAGATTGATTTTTTTTTTCATTAAAATGTTTTCACATATTGAGAATATAATAAAAAAATTTACTGGATGCTTGAGTCTTGTTTTGGGGGACTTTTTGTTTGTTTGTTTGTTTGTTTGTTTGTTTTTTGGGTTTTTTTGAGACAGGGTTTCTTTGTGTAGCCCTGGTTGTCTTGGAACTCACTTTGTAGACCAAGCTGGCCTTGAACTCAGAAATCCGCCTGCCTCTGCCTCCCCGAGTGCTGGGATTAAAAGCGTGCGCCACCACACCCGGCTTGGGGGACTTTTAAGTCTGTGAAGCTGTTATCCCAATGTTTGTATAATCCCTTGAAACATGTTTTTCATTTTTATCCTGATGAATAATTTGTGGAATGGGAATGATCACTTCAAATTTCACACCTTTGAGGTTTTTTTTGTCTTTATTTTGATTACCAGTTCTCCCCTTCTTCACTTTCCCATTGTAAAAATACAAACATCTTTTTAAAACTAAATTTTATTTATTTTGTGCATGTATTTTGGGTTGCTATGCCAAGGCATATGAACAGAGCTTAGAAGACAACTTGCACAAGTCAGATTCTCTATTTTCACCATGTCCTAGAAATGTCATTGAGGCCATCCAGCTTGACAGCATGTGTCTTTAGCCATTGGTAACGGCCATCTTGTTGGGGCCTTCCCTCCCCATCATAAGTGTCAGTATTAATCAGCTCTCATAAAAATTGAGGTTTTTTTTAATATAATTTATACTTGACCTGAACTCAAGAACTGTCCCAAAAAGTATTAATATACTTCAAAGGCTAATCAAGAAGTGTGGTATATTGTACTTAGTTTAAGGAGGCCCAATATCTGTTAGTTCTTAGCTCTCTACTCTTTTGCCAGAAAGAAATTGGGTTTTAAATGAGAAAGAAGAAACTTCTGGTTAAAGCCATAATCATATAAGAGATCCAGATCTGGGTCTGGCCATATGCTTCATTGGTTGTATGCTTCTTGTCTAATGATAAAGTGATTTTGTCACTTCATAATAATACCCTGTGATCTGGTGAACGGTTTTGAAAAGGGACCCCCTTTCATTTTAAATTCATGAAGACAGATGGACATCATAGGGGGTGCTATTTGGCCTTAATAAGTAGCCATTCTAAAAGGAGGGTAATAGAAAGGAAGGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAGAGAAACAAAGAATTAATTCAATTCTTTTGTTTTTCAAGACAGGGTTTCTCTTGTATACAACAGCCCTGGCTGTCAGTGGCCGGTACTGGTCCTGTGCCGTTAATTCCAAAGGCAGATGCAGGCACATCTCTGAGTTTGAAGCTAGCTTGGTCTACTAGGACAGCCAAGGCTACGTGAAGCCTTGTTTGGAAAAAACTAAAACCAAAATAAACAAAAATAACCCTGTCTGGTCTTAAACTCACAGAGATCCACCTTCCTCTGGGTCCCTGGTGCTGGGATTAAAGGCATGAACCACACCTAGTTTAATTTTATTTTTTAAGACAGGGCTTATCTATGTAATTCTGGCTGCTCTGGAACTTAACAATGTAGATTAGACTGGCCTCAAACTCACAGAAATCTGTTTGTCTCTGCTCCCTGAGTGCTAGGAGTAAAGATAGTATCCAGAGGGCAGCAGATAATAGTTTAGAATGGCATCTGGCACTCATCTTCCTTGTTCATTGATATATGGTTTTGTTTTGTTTTTTTTAATTTATCTTATCCTTGGCAATGGTATATCTAAGGGGCATTCTTTATATTTCTGAAATAATTTTTAAGATGCTCTGAATTGAAAAGAGCGCTTATGCTACAAAGATAGTGACAGATAAAGCCACACAGACTAGTCTGGTTGGTGGGTATACTACAGAGGACAAGCCAGGGAAACTGAAGGTAGACGTTGGACAAAGGCTCAGTGTTGTAAACAGATGCAGCTTGAGAATGAGTTTAAAGTTATACTTTCATATAGAGATACAGTGATAGACTTACTGTAAGTGTAGCTCTATGTCCTGTCTGTCATTCATTAGATTCTTTGTCCTATGTTCTAAGATTCAGAAAAAAAACAAAGCCAAGGGTGGGATGCCTTCATACTTACTCTAAAGCAATATTTTTTCCCTTTTTGAGACAGGGTCTCTATGTAGTGCAAGCCTTGCCTTGACCTTGCTTCTTGTCTCAGCCTCTTTTTTTTTTTTTTTTTTTTTAAAGATTTATTTATTGATTATGTGTAAGTACACTGTAGCTGTCTTCAGACACTCCAGAAGAGGGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTCGGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCTCCAGCCCTTGTCTCAGCCTCTTGAGTGTTGGGATTGCAGTTACAAGCTACCATTCCTGTCTCTCAAAATTGACAGATTGACTTTTGAGTTCTTGCCTCAGATGCCAGCTTGAATTTATAGATTGACTAACAAAGAATTTTCCCTGGGTTAATCATTGCAGTTATAAATTGTCTTTCATATCTCTTCCCTTGAAAATTGTCATTGCCTCGTTTTCTCATTATTCTTTTTCTGTGTAG
Seq C2 exon
GTTCCAAATAAATTCCGTTACCCATTTTACTATGAAATGTGTTGGTATGTGTTGGAGCGCTATGTATACTGCATAACCAACCGATCCCACCTAACTAAGGATTTTCAGAAAGAATCCCTTAGCATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000054611:ENSMUST00000047898:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0237317=JmjC=PD(17.8=46.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
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
- 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