MmuINT0163702 @ mm9
Intron Retention
Gene
ENSMUSG00000033327 | Tnxb
Description
tenascin XB [Source:MGI Symbol;Acc:MGI:1932137]
Coordinates
chr17:34855328-34855676:+
Coord C1 exon
chr17:34855328-34855479
Coord A exon
chr17:34855480-34855579
Coord C2 exon
chr17:34855580-34855676
Length
100 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
3' ss Seq
TGGCCTTGATTGCTTTCCAGGTG
3' ss Score
8.8
Exon sequences
Seq C1 exon
GTGGGCTGCGGATCCCCTTCCCCCGGGACTGTGGGGAGGAGCTGAAGAATGGGCCCAGTGCCTCAAAGACCACCACCATCTTCCTCAATGGCAACCGTGAGCGGCCTTTGGATGTGTTCTGTGACATGGAGACTGATGGAGGTGGTTGGCTG
Seq A exon
GTGGGTTCCATTCAGAGCCCGGCTCCCTGCTTATCACTGTGTAGCACAGGAGACGATGCAGGGGAACCACAGGCTGACTTTGGCCTTGATTGCTTTCCAG
Seq C2 exon
GTGTTCCAGCGCCGCATGGATGGACAGACGGACTTCTGGAGAGACTGGGAGGAGTACGCCCATGGTTTTGGGAACATTTCCGGGGAATTCTGGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033327-Tnxb:NM_031176:37
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.216 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(21.0=86.3)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(15.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGGATCCCCTTCCCC
R:
AGCCAGAATTCCCCGGAAATG
Band lengths:
242-342
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: