MmuINT0095021 @ mm10
Intron Retention
Gene
ENSMUSG00000020623 | Map2k6
Description
mitogen-activated protein kinase kinase 6 [Source:MGI Symbol;Acc:MGI:1346870]
Coordinates
chr11:110496339-110497974:+
Coord C1 exon
chr11:110496339-110496466
Coord A exon
chr11:110496467-110497896
Coord C2 exon
chr11:110497897-110497974
Length
1430 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGT
5' ss Score
8.56
3' ss Seq
GCTGTCTGTCTCCTTTCCAGCCT
3' ss Score
9
Exon sequences
Seq C1 exon
ACGTCAAGCCTTCTAATGTGCTCATTAACACACTGGGCCAGGTGAAGATGTGTGACTTTGGAATCAGTGGCTACCTGGTCGACTCTGTTGCTAAAACGATCGATGCCGGTTGCAAACCATACATGGCT
Seq A exon
GTAAGTACCAGCACGTAGCGTGCTTGTGTGCGTCTACCCATGCATGTCTGAGAAATGCACCTGCTTGCAAAACCAGGCAAGAAAGTAAGAAATGCATGCCTATAATGGAGAATTGGAATGAACCTCGGATTTGAGAAAGATTCTGCCTTGTGTCATTTTCTTAGAGGTTTTATGTCAGAAATCATTTTCACTCGCTCCCAATGTTGTCACCATCCTTTGAGGTTGCTATAACAAAATACTGTAAACTGGACACCTTACAGAACACAGTTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTGACTCTTTTTGCTCTGGCAAGTCCAAGATCAAGATATTGGAAGACGCAGGTTGTGGATGCTGGAGTCTGTGGTGAGGGCCCGCTTCTCTGCCTTATTTGAGGTTCCTGTTGCGTTCTCAAGTGGTGGAAGGAGCAGGGACCTCTCTAAGGCTTCTTTTATGAGGATACTAACCTCATTCATGAGGAACCTACCCCAAATCTACAGCCATCCAATAGAAACAAGACTTCCTGCTATGGTCACAGGTGGCATACTTTTTTTTTTTTTAATTTTATTTTTATGAGTACACTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCGGATCCCATTACAGATGGTTGTGAGTCACCACGTGGTTGCTGGGAATTGGACTCAGGACCTCTGGAAGAGCAGTCATCTTGCCGCGGAGCCATCTTGCCAGCCCCTGTGGGATATGGTTTTAACATGTACATTTTGGGATGACACAGAGACACAAACCATAGCATATATATTGCCTTTCGGAATTATCTCAAAGGGGCGTGTTATTTGAAAATGCATGTAAGTAGTAGGCACTTGCACTCAGTTTTACACACTGACTCACACCCGAATGTTAGCTTGATTGCTAAGGATAGAAGACTATGGAGATCTTAAATTATCCACACAAGGGAGCTCTGGTCATCACAGAATGGCCAACTGGAGGAATACATTTATCTTAGAAGGGACTTGAGTTTGAGATTGAAAACTTCTTGCCCATGTTTGAGTAAAATCCCCGAGGTCTCTTAACATCAGACGGTAGCTATGAACTTCTGCAGGCTTTTGTGGCTTTTGAGCTGTTGATGTTTTTTACCAGGGATAATTTTAATGGATAGAGGAGCTTTTGAATGTGTCCCGGTGTTCTTCTTAAGGCAATTAAAATTTGTTCTGCGGGATCTGAATTCATTGCTGCCTGTGAGAAAAAACCAATATAAAGAAGGGAAGCCCTGTGGAGACATTTCATAGCTTGTGATTAGCCAGTCTTTTGGCCCGGGAGGCAGGCTAACAGAGTCAAATAACTCATACGGCAAGTGCTGGTGTCTCCTCCTGAGTCTTTATTGAGCTACGTGGCATTGCAATCGTCTTTCCGTTTCTTAGCTGTCTGTCTCCTTTCCAG
Seq C2 exon
CCTGAACGAATAAATCCAGAGCTCAACCAGAAGGGGTACAGTGTGAAGTCTGACATTTGGAGCCTGGGCATCACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020623:ENSMUST00000020949:8
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:
PF0006920=Pkinase=FE(16.0=100)
A:
NA
C2:
PF0006920=Pkinase=FE(10.5=100)
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:
ACGTCAAGCCTTCTAATGTGCT
R:
CATGGTGATGCCCAGGCTC
Band lengths:
206-1636
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