MmuINT0022489 @ mm10
Intron Retention
Gene
ENSMUSG00000004085 | Map3k20
Description
mitogen-activated protein kinase kinase kinase 20 [Source:MGI Symbol;Acc:MGI:2443258]
Coordinates
chr2:72433368-72435305:+
Coord C1 exon
chr2:72433368-72433484
Coord A exon
chr2:72433485-72435230
Coord C2 exon
chr2:72435231-72435305
Length
1746 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TCCTAACTTCCGTGTTTCAGCCA
3' ss Score
6.92
Exon sequences
Seq C1 exon
GATTGCAAATGGAAAATGTATATGGAGATGGATGGGGACGAAGTTGCAATCACGTACATAAAAGATGTGACTTTCAACACGAGCCTCCCTGATGCAGAGATTTTAAAGATGACAAAG
Seq A exon
GTAAGGTTCTATTTACAGCTTAAAAGCGTCTTCCGAATTCACAGATATCAAACAAAGACATTAGAATACCGCAGCAGTGGGCTTTTGTGCTCCTGGATGCTCACATCAGCTCGGTCTCAAGCTGCCTCTTGAAAGGCACATTTTATTTAGCAGATTGAGAGGATAATTTTTTTGTTAAAATTCCACTTATGCTGTGTGAAATAAAAAGCACTGCAAACAAAAAAAAAAAAGTATCATTTAAGTTTCTTTTTAATCCTACATCTCTTCATACTTACTCTATCATTTATTAAAGTAAAAAAATGTTATCAATGAAAATATTTACTTGAAACTGCATTGACTTAAACTTTGAGTAAACTTGTGATGATGAATACTTCCTTTTTGCTCTTCACTGCTGGGGATGAGTGCAGGGCCCGTGCGCTGGACAGTGTTCTACCCCTGAGCTGCATCCCCAGTCTGAGCTCTTCAGTGTTAGAAGGATTGAGATAAGGCCGATTGGGGGACAGGTTACTACTTTGTAGCCTCTGTAAATTCACACTGAAGATTTATTTTTACAGTGCTTGGAGAGCCTGGTAGTAATACAGAGTCACTAGAAACCCTGAAGAAAATCTGATAGAAAATGCTTAACTTGATCCTCAGAATGGGAAAAAAAAAATCAGTTGTTTTCCCTAACTGTACTAGGAAAAAAACAAAAACAAACCATGGTAGAAGACCTAGTGCTTCAGACAAAGCACAGTACAGCTGGTCATCCTGACCTCAAGTTATCACCAACCCTGGTACATGAGTAACTTAAGTGCGTGTTGAGTTCTAGTGAAGAAAATGGAGCTTTTTGGAAAGAGTCAGAGTGCAGACACAAGTAGGAAACAGAATGAGTCAACAGAGCCATGACGTTTAACTTGTGTGTTCTCCACATAGACATAAGATGGCTGAATGACCAAGTCCTTGTAACTTACAAGTAGATTCATTGAAAGGCTGGTTTGGTATTTGTGTTGGAGCCCTCTATATAACTGGAATTCACTTCCATGGCCTTCCTTACCTGGGAGACTATGGTTTGGTTTAGTGTTTCCTTACTTTGTGGTGGCACACTATGTTTTGATGTCTGGGGGACTAGAAAGGACCACAATGTCCTTATTGGTACAAGCCTCTTGGCATGATAGCCTGACAGACTGGAAAGCTGAGTGGTTATCAAATCCTCTACACTAGTCACTGCTCAACCTAAAGGGGCCTCTCATATTATCATGGCTCTTAATATTGAGAAAGCTTTGGGCTACTGCTTCAAACAGCATGAATTAATAACTTGCTGATAGGATTGAATGGCACGTCATGTGTCACCCCAGACAGGATTGAGAACCTTCATGGTGGTACATCTGTGATACCAATATTTGGGAGGCTGAGGCAGGAGGATCATCGACCAGTTCTAAGCCAGGACTACACAGCCAGACCCTAGCTCACAGAAACACAGAAGACCATGGGAGACCAGGACTACTGTCTCCTCTCAGTAGGACATGCACACAATTCAGCCATGCAAAGATTAGTTTTGCAAATATATATATATATACACATACACACATATATATATAAAACAAAGCCCCAATATACAAGTATGTTATAAGCCAACCATGTTTTATGGTCATCTGATATTCTGTCCCTGTTTGAAAATTGCTTATGGCACAACTAACTGGCCTCAACCACGCGAGGCAGCACAAGGCTGTGTTCTGATACTAAGCCATCCTAACTTCCGTGTTTCAG
Seq C2 exon
CCACCATTTGTAATGGAGAAGTGGATCGTGGGAATAGCGGAGGATCAGACTGTGGAGTGCACGGTCACCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004085:ENSMUST00000090824:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGCAAATGGAAAATGTATATGGAGA
R:
CTCATAGGTGACCGTGCACTC
Band lengths:
190-1936
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