MmuINT0163703 @ mm9
Intron Retention
Gene
ENSMUSG00000033327 | Tnxb
Description
tenascin XB [Source:MGI Symbol;Acc:MGI:1932137]
Coordinates
chr17:34855580-34855924:+
Coord C1 exon
chr17:34855580-34855676
Coord A exon
chr17:34855677-34855762
Coord C2 exon
chr17:34855763-34855924
Length
86 bp
Sequences
Splice sites
5' ss Seq
TGGGTCCGT
5' ss Score
-0.12
3' ss Seq
TGAAGCATGCTCCACCCCAGGCA
3' ss Score
3.21
Exon sequences
Seq C1 exon
GTGTTCCAGCGCCGCATGGATGGACAGACGGACTTCTGGAGAGACTGGGAGGAGTACGCCCATGGTTTTGGGAACATTTCCGGGGAATTCTGGCTGG
Seq A exon
GTCCGTGCTTCATAGGGCTGGGGAGCCAGGGAAGGGATGGCAGTCCAGTGAACCCCAGTACCCTGATGAAGCATGCTCCACCCCAG
Seq C2 exon
GCAACGAGGCCCTGCACAGCCTAACACAGGCTGGAGACTATTCTCTGCGTGTGGACCTGCGGGCCGGAAAGGAAGCCGTGTTCGCCCAGTATGACTTCTTCCGTGTAGACTCAGCAAAGGAGAACTACCGCCTACACCTTGAGGGCTACCATGGGACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033327-Tnxb:NM_031176:38
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=FE(15.2=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(25.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATTTCCGGGGAATTCTGGC
R:
TGGTAGCCCTCAAGGTGTAGG
Band lengths:
175-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: