RnoINT0036589 @ rn6
Intron Retention
Gene
ENSRNOG00000015999 | Cirbp
Description
cold inducible RNA binding protein [Source:RGD Symbol;Acc:620756]
Coordinates
chr7:12402570-12402894:-
Coord C1 exon
chr7:12402788-12402894
Coord A exon
chr7:12402709-12402787
Coord C2 exon
chr7:12402570-12402708
Length
79 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACCTTCCCTTTGTTCTGCAGTCT
3' ss Score
9.39
Exon sequences
Seq C1 exon
TGGTGGTGGTAAAGGACAGGGAGACTCAACGATCCCGAGGCTTCGGGTTTGTCACCTTTGAAAATATCGATGACGCTAAGGATGCCATGATGGCTATGAATGGGAAG
Seq A exon
GTGAGGATCAGGTCAGCCAATTTAGCTTGCATAGGCCTGGTATGGAATGGGGCACAGTGACCTTCCCTTTGTTCTGCAG
Seq C2 exon
TCTGTGGATGGGAGGCAGATCCGAGTTGACCAGGCTGGCAAGTCTTCTGATAACCGGTCCCGAGGATACCGGGGTGGCTCTGCTGGAGGCCGTGGCTTCTTCCGTGGGGGACGCAGCCGGGGCCGAGGGTTCTCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015999:ENSRNOT00000021648:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.979
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
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTGGTAAAGGACAGGGA
R:
ATCCTCGGGACCGGTTATCAG
Band lengths:
173-252
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]