MmuINT0132659 @ mm9
Intron Retention
Gene
ENSMUSG00000043639 | Rbm20
Description
RNA binding motif protein 20 [Source:MGI Symbol;Acc:MGI:1920963]
Coordinates
chr19:53891636-53892510:+
Coord C1 exon
chr19:53891636-53891727
Coord A exon
chr19:53891728-53892412
Coord C2 exon
chr19:53892413-53892510
Length
685 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TGTTATTGTTCATCATTCAGATT
3' ss Score
7.62
Exon sequences
Seq C1 exon
TGCTGGCCTCCGGAGTATACGTGCTTCAGGAGAGGGGACACTGTCTGCCTCTGCTAACAGCACAGCTGTTTATAACCCCACTGGAAACGAGG
Seq A exon
GTGAGTGGAGGGGGCCCTCAGATGGCAGCTGGGAGCAGAATGCAGGCCTCAGGTTTATGTTCTACCTCGGAGACCAGTTCTCTCCTGATAGGAGCCTCCTGAGCGCATGCAGGCAGCAGGTCCCAACACCGACAAAGTTCTCTGGGGTGTTTTAGACCCTCCCTGTGCTGGTTACAGTGAGCACAAGGCACAATCATACAAACACTAAAAATTATAGCGAGAAAAAATATACAGTGTTCTTGTCCCACGTGTCTGAATCCTGTGTGTGTGTGCATGTGTGCATGCATGTGTCTGTGTGAATGTGCACAAATGCATCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCATGTGTGCATGCGTGTACATGTTGAGACACGGCCTCTTGTTGGGTTGGTCCCCAGCTCATGGGTTGGGCTAGGGCGACTGACCAGTGAGCCTCAGAGGTACTCCTATCCCTGACTCCCCAACACTGGAATTGCAAGCAAGTGCTACCACACCTGCTACTTCCTGTGAGTTCTCCAGACTGAATTCAGGTCCTCAGGCTTGCAAGGCAAGCATCGACCAGTCAGTCAAGCCACCTCCCCAAGTCATGAATTTTGAAGGTCAGGTTTGTGACTAGGTTGTTCTTCTTTTTCTTCTTGTTTTTTTTTTTTTAACCTGTTATTGTTCATCATTCAG
Seq C2 exon
ATTATACCTCAAATCTTGGAACATCATATGCAGCCATTCCAACGAGGGCCTTTGCTCAGTCAAACCCCGTGTTTCCTTCAGCTTCCTCTGGGACAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000043639-Rbm20:NM_001170847:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.156 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGGCCTCCGGAGTATAC
R:
ACTTGTCCCAGAGGAAGCTGA
Band lengths:
190-875
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: