MmuINT0132830 @ mm9
Intron Retention
Gene
ENSMUSG00000036249 | Rbm43
Description
RNA binding motif protein 43 [Source:MGI Symbol;Acc:MGI:1918934]
Coordinates
chr2:51779969-51782280:-
Coord C1 exon
chr2:51782201-51782280
Coord A exon
chr2:51781455-51782200
Coord C2 exon
chr2:51779969-51781454
Length
746 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTTCTCTTTCTTATTGTAGGTC
3' ss Score
11.78
Exon sequences
Seq C1 exon
TTGCACAAGACTTCATCAGACAAAAGAAACACCCTCCAGGCTCAGAGCCTCGGCTCACAGTCTCTCACTTCAGTGAAAAG
Seq A exon
GTGAGTGTGGGCCCTGGGATGTGTTTGAGGCCTGGACCCCATTTCTCTTGGAAAGTCTTTCATACACAATGATATACAAAGTGCTCCCTTCCCATGCCTTCTTAGGAAAGAGCAGAGGCTTCTCAGGTCTCAAAGGCAAAAGCTGCTCCTAGAAATGTTGGTTTTAGGTTTTAATAGTATATGTGTCCCTTGATACTTTTAAAGTGACCATGAGCTTTTTTGTTGTCATGGATGATAGCCGGGCTGAAGGTTTTATACTAGGGAATAATTAAGATGAGCATTAAAAAGGAACTTTGAAGGAGCGAGAAAAGTGGGTATGAGAACGAAAGTTAAAATCTAACCCAGTAGTTTCCACGCAGATTCTTTAGGGAATCCAGGCTTCTGGTGTAGCCAGCTATTGAAATTTAAGCTGGGAGAAGTAGGGCAGGCCCAACTGCAGGGGGATGTCTGTCTGTGGAGCTTATACCAACAGTTTTTATGTCAATGGATTCTGAAAAGCACTTCGTTTCAAAACAGCATTTTGTCTCAAAATATTGTTTTGCTTTTCATTTCTGGGGTGTGTGGTGGGGGCTGTTCCTCCATGTGGAACAGCGTAGGCTCTCTGTAGGGCTGATCTAGATCAAGGAGCCAGAAGCCTGGACTTCACCTTAGAGCTGAGCCACTGGGAAGAGAGGCAGGAGACAATGTGTGCAGGTTTTGCTCCATTAGGCAGTGTTGTCTTGACTGTTTTCTCTTTCTTATTGTAG
Seq C2 exon
GTCTTCAACTATGTGATGGCCATTCTTGATCTGTCTGTTTTTCGCACTCAAATTGAGCTAGAAAGCCTAGTAGTGGACCTGAAAAAGAAAATCCCAACTTTAAACTTTAGCCCATTGGGACCCAGTGGGAAAATCTCTGTGCAAGGTTCATTTCTGGCCATCATGAAGCTCAAACAGGCTTTGATATCAAAAGCCATTTCCCCTTTAGAAAACAACAGGAAAGATGCTGGTGAAAGGAGAAACTGGAATGGAGAGAACCCTAGAAGGATCCTGCAGAAAAGGGAGAACTCGGCGTCGATACTTGGGACCTTTGTAGCTGAGCCTGCCGGCAGCCCAGAAACACTTGTGCTTGACACAGACATTTTCCTTTATCTGAAACACAAGTGTGAGTTTTATCATCTAACACTGAGCAAATACCATGTCCTGTGTCAGGAGAGGGTGGATGGTGACGTCACTACCATTTGTCTACAAGACGCCCAGGATGGGTCTTGCTCTGGCAGCGTCAGACATGTGAAAGAATTCATTGAAGAGTGTGCCCAGGAGTTCCACCTTGAGCTCAGAAAAGAGCTACTGGTTTTGGAAGGAATGGGAGATAGAGAGAAAAGAAACATTAGGCAGGCTTTAGAAGAACTGGGTGGCAGATATCCTAGAGTTTTGACCAACGTTCACAGCACACATATTGATCTTATAGGACCTCCTTCCGACACATACCTATTTAAGACACAGCTCATGAAATCTGCGGGGCAAAAGGTCACTTGAAGTCTCAGCCACAGTTATCATGGTCACTTCCCCTGCCCCTTCCCCATCTAAGGTATAGGAGAAGATAAGATTTACAGATATGAAACTACTTATTCAAAGTTGCCCAGCAGACAACAACTGGGACTAGCATTGAATAAAAAGTAATGTCTAAATCAAACCTTGAAAAGAGAACTCACTAAATGTTGAAGCAATCTCACTTTCCCTCCAAATCTAAAATTATTAGGAAAAGAAGTCTTCCCCTGCATAGGTTTGTATGACTTTTAGGCTGTTGCTAGCTTCTTGGGTTTTACATTCACCCCACCCCACACAGCATTAGAATGTTGGTCAAGCTCACCTGGGAAGCTGTGGTTCTGTTAGAATTGTGGGGGAATCTTGGGAGAAGTCTGTGCAGTGGCTTTTGTGGGTGGTTCTTGCTTTACGATAGTGTGGCGTCCAGATGAGCATTGTAAGTTGAAAACACTGTGAATCAGCAATGCCGTTAATCCAAGTAATGTGCAGAACACCCTAGACTTGCCAAACTGCCCACAGTGAAGAAAGGACTGCTTACCCTGGTTGCTGCGTTGACTGACAGCTCAGGCTCGCTGCTGCTGCTGCTGCTCTGCACTGCTAGAGAGCATTGTACTGTGGATCAGCACTTGCCTGGAAAAGATTCAATGTCTCAAGTATGATTTCTACTGACTCTTTATTCCTCTTGCACCATAATAAAGTAAAACTTACAGAAAATTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036249-Rbm43:NM_001141981:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.222 A=NA C2=0.071
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(22.2=51.9)
A:
NA
C2:
NO
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:
TCGGCTCACAGTCTCTCACTT
R:
GCAGGCTCAGCTACAAAGGTC
Band lengths:
357-1103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: