MmuINT0159455 @ mm10
Intron Retention
Gene
ENSMUSG00000029287 | Tgfbr3
Description
transforming growth factor, beta receptor III [Source:MGI Symbol;Acc:MGI:104637]
Coordinates
chr5:107136919-107137670:-
Coord C1 exon
chr5:107137530-107137670
Coord A exon
chr5:107137078-107137529
Coord C2 exon
chr5:107136919-107137077
Length
452 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
ATCTGTTGGCTGTTTTCCAGTTT
3' ss Score
6.25
Exon sequences
Seq C1 exon
ATTGTGGTGCAGGCTCCATCCCCTGGGGATAGCAGTGGCTGGCCAGACGGCTACGAAGATTTGGAGTCGGGTGATAATGGATTTCCTGGAGACACAGATGAAGGAGAAACTGCCCCCCTGAGCCGTGCTGGAGTGGTAGTG
Seq A exon
GTATGTGTTAGTCTCCCGTAGATGGTTCTGTGGATACATTGTTGCTCAAGCTGGTGTGGTGGTGGTGGTGGTCCTACATGTTGGTCTCCCTTAGATGGTTCTGTGGATACATTGTTGCTCAAGCTGGGCTGGTGGTAGGTATTGGTCTCCCTTAGACCACTCTGTGGATAACATTGTTGTCCATTTGGTTTGTTTCACTGGGAAGTATCAAACCTAAAATTGCAGTGGCTACGCCTTTAATTCCAGCACTTGGGAGGCAGAGGCAGGCGAATCTCTTAGTTCAAGGCCAGCCTGGTCTACAGTGTGAGTTCCAGCACAGCTAGGGCTATACAGAGAAACCCTGTCTCAAACAACAACAACAAACAACAAAACAAAACAAAATAAAACCTAAAATTACATGTTAAAGGCTCTTCATGTGACTGATGTGTCCTTATCTGTTGGCTGTTTTCCAG
Seq C2 exon
TTTAACTGCAGCTTGCGGCAGCTGAGGAGTCCCAGTGGCTTCCAGGACCAGCTCGATGGAAATGCTACCTTCAACATGGAGCTGTATAACACAGACCTCTTTCTGGTGCCCTCCCCAGGGGTCTTCTCTGTGGCAGAGAATGAGCATGTATATGTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029287:ENSMUST00000031224:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.617 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=FE(17.0=100)
A:
NA
C2:
PF0010018=Zona_pellucida=FE(19.2=100)
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:
ATTGTGGTGCAGGCTCCATC
R:
ATATACATGCTCATTCTCTGCCACA
Band lengths:
294-746
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