HsaALTA0001881-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000099622 | CIRBP
Description
cold inducible RNA binding protein [Source:HGNC Symbol;Acc:1982]
Coordinates
chr19:1269330-1271015:+
Coord C1 exon
chr19:1269330-1269409
Coord A exon
chr19:1270927-1270942
Coord C2 exon
chr19:1270943-1271015
Length
16 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
TTCATTGGTGTCTGCCACAGGCC
3' ss Score
9.1
Exon sequences
Seq C1 exon
CCTCACTCGCGCGTTAGGAGGCTCGGGTCGTTGTGGTGCGCTGTCTTCCCGCTTGCGTCAGGGACCTGCCCGACTCAGTG
Seq A exon
GCCGCCATGGCATCAG
Seq C2 exon
ATGAAGGCAAACTTTTTGTTGGAGGGCTGAGTTTTGACACCAATGAGCAGTCGCTGGAGCAGGTCTTCTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000099622-0-1,0-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.139
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=PU(38.0=77.1)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAGGAGGCTCGGGTCGTTG
R:
GGTGTCAAAACTCAGCCCTCC
Band lengths:
108-124
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)