MmuINT1033525 @ mm10
Intron Retention
Gene
ENSMUSG00000033327 | Tnxb
Description
tenascin XB [Source:MGI Symbol;Acc:MGI:1932137]
Coordinates
chr17:34718152-34718534:+
Coord C1 exon
chr17:34718152-34718284
Coord A exon
chr17:34718285-34718382
Coord C2 exon
chr17:34718383-34718534
Length
98 bp
Sequences
Splice sites
5' ss Seq
CTGGTACTG
5' ss Score
4.41
3' ss Seq
TCTCCACCTCCTCTCCGCAGGTG
3' ss Score
13.16
Exon sequences
Seq C1 exon
GAAATCCTGCTTCCAGCAGGAACCACCTCGCACAGGCTTCTGCGCCTCTTCCCCTCCACCTTCTACAGTGCCCAGCTGCGGGCCATCTGGGGCGAGAGCCTTACACCTCCCGTGCTCACTTCCTTTACTACTG
Seq A exon
GTACTGGCTCTGGGGTTTGAGCTTCGCGGGGGTTGGGGGGCTCTGGGATCTGAGGTTTGGGGAGGAGAACAGACAGACTCTCCACCTCCTCTCCGCAG
Seq C2 exon
GTGGGCTGCGGATCCCCTTCCCCCGGGACTGTGGGGAGGAGCTGAAGAATGGGCCCAGTGCCTCAAAGACCACCACCATCTTCCTCAATGGCAACCGTGAGCGGCCTTTGGATGTGTTCTGTGACATGGAGACTGATGGAGGTGGTTGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033327:ENSMUST00000087399:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.216
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(45.6=80.0)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCCTCCACCTTCTACAGTG
R:
CACGGTTGCCATTGAGGAAGA
Band lengths:
183-281
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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