MmuINT0036510 @ mm9
Intron Retention
Gene
ENSMUSG00000045193 | Cirbp
Description
cold inducible RNA binding protein [Source:MGI Symbol;Acc:MGI:893588]
Coordinates
chr10:79632761-79633085:+
Coord C1 exon
chr10:79632761-79632867
Coord A exon
chr10:79632868-79632946
Coord C2 exon
chr10:79632947-79633085
Length
79 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACCCTAACTTTCTCCTGCAGTCT
3' ss Score
9.5
Exon sequences
Seq C1 exon
TGGTGGTGGTAAAGGACAGGGAGACCCAGCGATCCCGAGGCTTTGGGTTTGTCACCTTTGAAAATATCGATGACGCTAAGGACGCCATGATGGCTATGAATGGGAAG
Seq A exon
GTGAGGATCAGGTCAGCCAATTTACCTTGGATAGGTCTGGTGTGGAATCGGGTACAGTGACCCTAACTTTCTCCTGCAG
Seq C2 exon
TCTGTGGACGGGCGGCAGATCAGAGTTGACCAGGCTGGCAAGTCTTCTGACAACCGGTCCCGAGGATACCGGGGTGGCTCTGCTGGAGGCCGGGGCTTTTTCCGTGGGGGACGAAGCCGGGGCCGAGGGTTCTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045193-Cirbp:NM_007705:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.919
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=FE(49.3=100)
A:
NA
C2:
PF0007617=RRM_1=PD(9.9=14.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTGGTAAAGGACAGGGA
R:
GGGACCGGTTGTCAGAAGACT
Band lengths:
167-246
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: