MmuINT0036513 @ mm10
Intron Retention
Gene
ENSMUSG00000045193 | Cirbp
Description
cold inducible RNA binding protein [Source:MGI Symbol;Acc:MGI:893588]
Coordinates
chr10:80170694-80171655:+
Coord C1 exon
chr10:80170694-80170764
Coord A exon
chr10:80170765-80170981
Coord C2 exon
chr10:80170982-80171655
Length
217 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TGTCCCGCTTCTGTCCTCAGCTA
3' ss Score
9.99
Exon sequences
Seq C1 exon
CCGGAGTCAGGGTGGCAGCTATGGTTATCGGAGCTCGGGAGGGTCCTACAGAGACAGCTATGACAGTTATG
Seq A exon
GTAAGTCTAGCTCCAAGGATGCCATCTGAGTGGCTGCGGTTGGGCTCGGTGAACCCTTGTGTCCTCAGAGCATCTTAAGCCGCTCAGCCTTGGGCGCAGCTACCAGGCCTGCCGTACAGGTCAGGGCACCAGGTGCATGAAACCCTGTGCCACCTCCCACGCGCGCGGGCGGAGCACAAGCTCCAGTGACTTTACACTGTCCCGCTTCTGTCCTCAG
Seq C2 exon
CTACACACAACGAGTAAAAGCCCTCCGCGTCCAGATCGTCCTTCCATGGCTGTAATTAAGATGGGGGAGCTTCGCTGATCGTTGTGTAGTGAGCACCTTGTTCCCACTTTTGTAGTCCTTTCCGTTCTGACCCGTCAGCAGCCTGCTTCTGACCCAAGATGGCCTCGTGACTAGACCTGTTTTTAAGGAAGCGCTGTCTGTTTTTAAGTATTCTTAAAAACGTTTTGGAAAGCACTTCAGATTTTACTGTTTACCATGAGCCATGGGTTTTTGTTTTTTCTAAATTGTCGGGTTGTGTGGGTTTTGGTTACTCGTTTTTGTTTTTTCAGGTTTTTTGGTTGTGGCTTTTCTTTTTTTTTCTTTTTTTGTGTGGTCGCCCCTGAAGTCTGGCGCCCCACCCCTCCTGAGATGGAATGGACTCGATTTGAGCAAGCCATGGCCCTCCAGCTCCCCAGCCCGGCTGCGGAGTTGCAGCAGGTCCTGCCCATCGGGCACATGTCTCAAGCCCATGGGGAGCATAGCAGTCCGGGAGGCTGTGGAAATGTTTATTTATATTGTCCTTTTTTACCGAAGACATGCATACTCCATCGATGTTGTATTCACAGTGGCTGAGGAATTCTTGTACGCAGTTTCTTTGGCTTCACGAAGCCGATTAAAAGACCGTGTGAAATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000045193:ENSMUST00000105365:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.640 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGCTATGGTTATCGGAGC
R:
TCTGAAGTGCTTTCCAAAACGT
Band lengths:
299-516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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