RnoINT0036588 @ rn6
Intron Retention
Gene
ENSRNOG00000015999 | Cirbp
Description
cold inducible RNA binding protein [Source:RGD Symbol;Acc:620756]
Coordinates
chr7:12402788-12403173:-
Coord C1 exon
chr7:12402982-12403173
Coord A exon
chr7:12402895-12402981
Coord C2 exon
chr7:12402788-12402894
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CTAATGCCTCTCTCCTGCAGTGG
3' ss Score
8.63
Exon sequences
Seq C1 exon
AAAGGCTAAGAATACGCTATCTGGCTTCAGTTTCTGGAGGGGTGGTGGTTAAGGCCAAGCAAGCATCTGTAGTGTGTGCACAGGCTGCCATGGCATCAGATGAAGGCAAGCTTTTCGTGGGAGGTCTCAGCTTCGACACCAATGAGCAGGCGCTGGAGCAGGTCTTCTCCAAGTATGGGCAGATCTCGGAAG
Seq A exon
GTGAGGCTTGGGTCGGGAGCACTGGTTCTGCTTCGGGGAAAGGGAGGGAGTGGCAGACAGGGCAGGTCTAATGCCTCTCTCCTGCAG
Seq C2 exon
TGGTGGTGGTAAAGGACAGGGAGACTCAACGATCCCGAGGCTTCGGGTTTGTCACCTTTGAAAATATCGATGACGCTAAGGATGCCATGATGGCTATGAATGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015999:ENSRNOT00000021648:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.083
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(38.0=77.1)
A:
NA
C2:
PF0007617=RRM_1=FE(49.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCAAGCAAGCATCTGTAGT
R:
GGGATCGTTGAGTCTCCCTGT
Band lengths:
176-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]