MmuINT0079380 @ mm9
Intron Retention
Gene
ENSMUSG00000026864 | Hspa5
Description
heat shock protein 5 [Source:MGI Symbol;Acc:MGI:95835]
Coordinates
chr2:34627610-34627966:+
Coord C1 exon
chr2:34627610-34627666
Coord A exon
chr2:34627667-34627748
Coord C2 exon
chr2:34627749-34627966
Length
82 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
GAGGCCCCTGTCGCCCTCAGACC
3' ss Score
7.21
Exon sequences
Seq C1 exon
TCGATACTGGCCGAGACAACACTGACCTGGACACTTGGGCTTCTGCGTGTGTGTGAG
Seq A exon
GTAAGCGCCGCGGCCTGCTGCTAGGCCTGCTCCGAGTCTGCTTCGTGTCTCCTCCTGACCCCGAGGCCCCTGTCGCCCTCAG
Seq C2 exon
ACCAGAACCGTCGTCGCGTTTCGGGGCCACAGCCTGTTGCTGGACTCCTAAGACTCCTGCCTGACTGCTGAGCGACTGGTCCTCAGCGCCGGCATGATGAAGTTCACTGTGGTGGCGGCGGCGTTGCTGCTGCTGGGCGCGGTGCGGGCCGAGGAGGAGGACAAGAAGGAGGATGTGGGCACGGTGGTCGGCATCGACTTGGGGACCACCTATTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026864-Hspa5:NM_001163434:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0001215=HSP70=PU(1.8=26.2)
Main Skipping 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:
TCGATACTGGCCGAGACAACA
R:
ACAGTGAACTTCATCATGCCGG
Band lengths:
167-249
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: