MmuINT0132657 @ mm9
Intron Retention
Gene
ENSMUSG00000043639 | Rbm20
Description
RNA binding motif protein 20 [Source:MGI Symbol;Acc:MGI:1920963]
Coordinates
chr19:53887738-53890067:+
Coord C1 exon
chr19:53887738-53888830
Coord A exon
chr19:53888831-53890005
Coord C2 exon
chr19:53890006-53890067
Length
1175 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TCCTTTCTCTGGTCTTATAGGAC
3' ss Score
10.81
Exon sequences
Seq C1 exon
TGCTGCCAAGCTCCTGGATAAGAGCCCCTTCTCGGTCAATAACCAGAACCCTCTGCTCACGTCGCCAGCCAGCGTCCAGCTGGCCCAGATACAGGCTCAGCTCACCCTCCATCGGCTGAAGATGGCACAGACCGCAGTCACCAACAACACTGCAGCGGCCACGGTTCTGAACCAAGTCCTCTCCAAAGTGGCCATGTCCCAGCCTCTCTTCAACCAGCTCCGGCATCCGTCTGTGCTCGGCACCGCACATGGCCCTACTGGGGTGTCCCAGCATGCTGCCTCGGTTCCCAGCGCTCACTTCCCCTCAACCGCAATCGCCTTTTCGCCCCCAAGCCAGACAGGAGGCCCAGGGCCTTCTGTGAGCCTCCCCAGCCAGCCCCCCAATGCTATGGTAGTTCATACCTTCAGTGGAGTGGTACCTCAGACCCCTGCCCAGCCAGCTGTCATCCTTAGCCTTGGGAAGGCTGGGCCTACACCGGCTACTACAGGGTTCTATGACTATGGCAAAGCCAACTCCGGCCAAGCGTATGGTTCTGAAACGGAGGGCCAGCCAGGCTTCTTGCCAGCCTCGGCCTCAGCCACAGCATCAGGCAGTATGACCTATGAAGGGCACTATAGCCACACAGGGCAGGATGGCCAACCTGCCTTTTCTAAAGACTTCTATGGACCCAATGCCCAAGGGCCACACATAGCAGGTGGATTTCCAGCTGATCAGACTGGGAGCATGAAGGGAGACGTTGGTGGGCTGTTGCAAGGCACCAACAGCCAGTGGGAGAGGCCCCCTGGATTCTCAGGCCAAAACAAGCCCGATATTACAGCGGGACCCAGTTTGTGGGCTCCACCTGCCAGCCAGCCTTATGAGCTCTATGACCCTGAAGAGCCTACCTCAGACAGGGCCCCTCCTGCCTTTGGGTCTCGGCTTAACAACAGCAAGCAGGGATTCGGCTGCTCTTGCCGAAGGACAAAGGAGGGACAGGCTGTGCTGTCCGTGAGGCCCCTGCAGGGTCATCAACTGAACGATTTCCGAGGCTTGGCTCCACTCCACCTACCACATATCTGCAGCATCTGTGACAAGAAGGTGTTTGACTTGAAG
Seq A exon
GTGAGTTACCCAAGAAGGGCTGGGACCCAAGCACAGACTCTAGCGGCATCTAAGAGAAGTCCCTTTGAGGACTATGGCACTAAACTCATCAGTGCCCTTTATGAGAATCGTAGGCCGTAGACCCTAAGGAGTTTTAGAATTACATCCCATCCTTTCACTGCTCTAAGGTAGAGGATGTCTTCCTCGAGATAGATGGAAAAAGCAGTGGTTTCCTCTTTCCCTTTGAGGATCTTTTTCTCCTTTGGGCTTTCTAGAAGCTTCGGTTCCTTCAAGATATATCTGTTGTACTAAGTTTGAAAAAGGGAAAAGTAGAATTTTGGGCCAAGGACAAAAGATCAATTCTTAGACCAGACCTAGACAAACCATTAAAGAGGACTCAAAATTTGCCGAGCGGATGGAGAGACTCCCACGCCTTCCATTGGTAAAGTGCTTTGCATTGCTGTGAACAGAACTTGCCTGGAAGAATGTTTGCGCCAAGGTTTACTGATGATACAGAGAAATATTCAAAGCCATAGTAAAACATAGGTACAGCTAGCAGACATTAAACTCTTCCCATGTGCTATACTCGTGACTGTAGGAGGTAGACACTGAGGTTGGGCTTTCTTGTTGCTTAATTGTGTTTGGAGAATGGGTCTCATTTAGTTCTGGCTGATCTTGGACTCAGTTCCTCCTTTGTGGGAGTCACACAGCACGGGTATCGTTCACGCTGCCCAGGTCATGTCTCCCAGAGGTGTCTCTGTGATTTGAGTGAGACCTTTCCACACAGTGAGGACAGTGATACTAGTGGTGCTGGAGGTTTCTGTCTCGCAGTCTTTTCTGAGGCTTTATAACTCACTACACCATAGACCAGAGAATAGCAGGTAGAGGGATTGCATGTGGCCAAAGATGGGTTACAGGTCTATGGACAGGAGACAAGGGGAAACTGCTTTCAAGTCTGGGGTGGCCATCCAAGATGGATACAGGGTATGCAAGTATAAGGAGTTAACAAGACTGGTACTTGGGTAGCAGCACCTAGAATAAGGAGGCATGGGGGGGGGGGCGGAAATGGAGACGAGGTGTCCTTATGGTCCAGCCTCAGGGTGCTCTGAGCTCCCTGCCTGGCTGGTGGTAACTGCCTTCACCCTCTGCCTCCCCGTGGACTCAGTTCAACTCTGGTCCTTTCTCTGGTCTTATAG
Seq C2 exon
GACTGGGAGCTACATGTGAAAGGGAAGCTGCATGCCCAGAAATGCCTGCTCTTCTCAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043639-Rbm20:NM_001170847:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.657 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF121713=zf-C2H2_jaz=PU(51.9=3.8)
A:
NA
C2:
PF121713=zf-C2H2_jaz=PD(40.7=52.4)
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:
CCTGGATTCTCAGGCCAAAACA
R:
TGCAGCTTCCCTTTCACATGT
Band lengths:
344-1519
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: