MmuINT0132829 @ mm10
Intron Retention
Gene
ENSMUSG00000036249 | Rbm43
Description
RNA binding motif protein 43 [Source:MGI Symbol;Acc:MGI:1918934]
Coordinates
chr2:51926681-51929849:-
Coord C1 exon
chr2:51929660-51929849
Coord A exon
chr2:51926761-51929659
Coord C2 exon
chr2:51926681-51926760
Length
2899 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
TGATGCTAATGTTTCCCTAGTTG
3' ss Score
6.62
Exon sequences
Seq C1 exon
GCATCAGCGTGGAAGGTCAAAGATCCTACAGTTGCTGAGAGAACAGTTGTAGTCTCTGGACTTCCAGTTGGCCTTTTAAAGGACCAGTTAGTGAAGTGCTACTTCCAAGACGAGGGTGGACATGTGGAAGAGGTGATATATCCATCAAAATCCAAAGGAGTTGCGTATATCATCTTCAAGGAAAAGAAAG
Seq A exon
GTAACCAAGATTTTATTATCTGAGAAGTGCTTTCTCGGTGACATTAAAATTTCATATTGTTAAAATGACTGATGGGATTGGCAGCGTTTGAAGTAGCATAAAAAATTACTCTGTTCTGAGAAGTGGCCAGTCTTATGTTTGCAAAAAATATATGAAAATAGCTTATGAAAATGTGTCAGTGAGTGAAAAAAATTGAAAACTTTAAAAAGTATTTTGCATATATATATACACACACACATATATATATATATACACACACACACACACACACACATACACCTTAGGAGGCAGATATAGAACATGTGTAAAATAAAGTTGAATTATATATAATCTCCTAGATAAGACAACTATTTAGGGAAGTCTCAGGTGGCAGCAGCAATATAATCACACTCTCTGCTTCTAATCCCTCCAACTATCAAGTGAAAAGTCCTTTTTTTTTCTTTTTTTAAGATTTATTTATTTATTTTATTCATATGAGTATACTGCAGTTGTCTTCAGACACACCAGAGAGGGCATTGGATCCCATTACAGATGCTTGTGAGCCGCTAGGTGGTAGCTGGGACTTGAAACTTAGGACCTCTGGAAGAGCAGTCAGTGCTCTTAATCACTGAGCCATCTCTCCAGGCTCTCAAGTGGAAATTCTAATAAAGAGTCTGCTTTGTTACTGGTTACATTGAACTGAGAACTATGGCCTGCACCTGAAATAGGACTGAGGTGTTCTGTCTCCCACTCCATCTTGAAACAGCCAGCTGCAGATTGGTGGCTGCAGATTGTCCTTGCTACTCCAGCCTGGAGGAGGGACAGTCTTTTTTAGGCTTAGATGCTAGAGGATAAATGCCAGAGAACATTCTCCGTGCTCTACCCCATCAGGAGCGAAAGTTCCATGCAGGTGTGTTAGGAAAAAAAAAAAGGCTCATGTTCTGTTTGGGGGTGGGGGAAGAAAAGCCATGTTCAGGTATGAGATTGTGGGAAGGGCTTGCCATCTCTTTAAAAATTCGGCAGTGGTGGTGTAAGGTGATAGTTCATGTGCTGAATATTGCTAAATACTATTCTAGATGTTGAGAATACATCCATGAGTGGAGTAGGCAGTCGTTTTGGTTTTCATGAAGTGTACATCAATGAGGTTGGGCATTTATTAGGGCAACAGATGTATAATATGTTTGCCCCTTATTTATATCTATATATGTATATTTACATTTGTTTATATGTTAACATATAAATGTTATGAAAAAGTATAGAGAATAATAAAGAGATAAAAGCAATGGGTGGTACTGCTTTAGGTAGACTGGGTCAGGAAATGTCTTTTGCTCTTTTAGCATTTTATTTGAAAAGAGTTATCTCTATTACTTTTATTTTATGGTGTGTGTATATGTGCACGCGCTTGAGTGTCTGAATATCATGTGTACAGAGGTGCTTGAGAAGCTCAGAAGAGGGAATTGGATCCTTGGAGTTGGAATTACACACGGGAGACCGTGAATCACTGGATGTGGGTGCAGAGAATGAGATTCAGGTCCTCTGGAAGAGCAGCGTGTGCTCTTTCCTGGTACACAATCTCTCCAGCTCTCTTTCTTATTTGCTTTTTGAGACGGAATTTTATCATATTGCCCAAGATGCCTAGACTGGTCTTGAACTGAGGGCCTCTGGCTTTTGTTCCGGTTAAGTTGGGATTACAAACTTGCATCACCAGATCTGGTTTGGGAACTGTGCGCGCGCGTGTATGTGTGTTGGAGATTATATCCAAGGTTTCATGTATAATAGGCATGTTGGGGATAATACCCAAGGTTTCATCTATGCAAGACATGTGCTGTACCAACTAGGTGTGTTCCCAGATATGAAACACTCTGTTTACCTAACGGTTAAGTAGAGACCAGAATGAAGCAAAAGGGGCAGGGGTGGGTGGGTGTGGTGGCTAAGGGGATAGAGAGGGATTCATGAGGATAGAGGGGAGGGGCATTTTAGGATAAATGAAGGACTGGTAAAAATTGTTAGGGTGGGGAGTGTGGTGAGGATGGAAGCGGAGGCACGTTGAGTGTGCAGAAAGAGGAAGGCAGGAATGGAATGAGTGTGGGCAAAGTAATTAATAGGTGTGCATAGCTCGTGAGCTAGGACCCACGCGTGCTGAGCAGCCTGTGGTCCAGGAGGTTTCTGGGTTGCTTGTGGTGAAGTGGGAGCTGTTGGAGGTCCTAAGTAAGGGACTGAGGAAGGGAGTTGCTCTTTCGAAACAATGTTGCAGTGTGGCGATCTATCAGTGGGTTGGGCTATAGAGAGGAATCGCAGAGCCAGTGAGTATCAAGGACACAGGTTTGAGGATGCTTGGGGGACCAGTGATGGAGAAGCAAGCTGTCCTTCATGTGACGGCTTTTAGGACAATGAAGTAGGATCAGAAGTTTGGAAGTGATACATGTAGAGATGTCTAAAGCCATAGAGGTTGAGATTAGCCACGGGTGGGTACAGTGAGGAAAGAGGCCCGAGGTCTAGATCTGCCAAGGTCGAGTGAAGAGCAGGAGATGAGGGGTTAGCAGCGAGGCAGGAGAAAAACTTCCGCAGCGTGGAATTTCTCGAAGGCAGTATTCCTCTGATGGGTGGCATGGAGGATTGACGTTAGGCTATTGCTTTTTACTCATGCATGGATTTGTGTGTGCTTAAAAGTAGAATTAGTATACATTTATGGTGAACTTTAGTGTGTTAAAGCACACAGGAAATGTTATCTGAATGTCAGGTGAAAGAGATAAATGTTGCAAAAAAACAAAAACAACAACAACAACAACAACAACAACAACAAAAGACAAAAAACCAAAACTTACTTTGCAAACAATAGAATTGAACATCTCTATTTGTAAATTAAGGTACTTACTGGTGTGTCATGCCACAAACACTTTTGATGCTAATGTTTCCCTAG
Seq C2 exon
TTGCACAAGACTTCATCAGACAAAAGAAACACCCTCCAGGCTCAGAGCCTCGGCTCACAGTCTCTCACTTCAGTGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036249:ENSMUST00000102767:3
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=0.222
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(76.2=75.0)
A:
NA
C2:
PF0007617=RRM_1=PD(22.2=51.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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