RnoALTA0009024-2/6 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000015999 | Cirbp
Description
cold inducible RNA binding protein [Source:RGD Symbol;Acc:620756]
Coordinates
chr7:12402982-12405022:-
Coord C1 exon
chr7:12404947-12405022
Coord A exon
chr7:12403075-12403090
Coord C2 exon
chr7:12402982-12403074
Length
16 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGG
5' ss Score
7.93
3' ss Seq
CATCTGTAGTGTGTGCACAGGCT
3' ss Score
2.57
Exon sequences
Seq C1 exon
GCACTCGCGCGTTAGGAAGCTTGGGTGTGTGACGCGCTGTCTTCCCGCCCGCGTCAGGGACCTGCCCGACTCAGCG
Seq A exon
GCTGCCATGGCATCAG
Seq C2 exon
ATGAAGGCAAGCTTTTCGTGGGAGGTCTCAGCTTCGACACCAATGAGCAGGCGCTGGAGCAGGTCTTCTCCAAGTATGGGCAGATCTCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015999-1-7,1-6,1-5,1-4,1-3,1-2-2/6
Average complexity
Alt3
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:
PF0007617=RRM_1=PU(38.0=77.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTTAGGAAGCTTGGGTGTGT
R:
CTGCTCATTGGTGTCGAAGCT
Band lengths:
117-133
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]