BtaALTA0007190-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000007480 | CIRBP
Description
Bos taurus cold inducible RNA binding protein (CIRBP), mRNA. [Source:RefSeq mRNA;Acc:NM_001034278]
Coordinates
chr7:45354486-45355763:+
Coord C1 exon
chr7:45354486-45354563
Coord A exon
chr7:45355655-45355670
Coord C2 exon
chr7:45355671-45355763
Length
16 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGG
5' ss Score
6.13
3' ss Seq
TTCATTGGTGTTTGCCTCAGGCC
3' ss Score
8.04
Exon sequences
Seq C1 exon
TCACTCGCGCGTTAGGAGGCTCTGGTCGTTTTGCTCTCCTGTCTTCCCGCCTGCGCCAGGGACCTGCCCAACTCAGTG
Seq A exon
GCCACCATGGCATCAG
Seq C2 exon
ATGAGGGCAAGCTTTTCGTCGGAGGGCTGAGTTTTGACACCAATGAGCAGTCACTGGAGCAGGTCTTCTCAAAGTATGGACAGATCTCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007480-1-1,1-0-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0007617=RRM_1=PU(38.0=77.1)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCTGGTCGTTTTGCTCTC
R:
GGTGTCAAAACTCAGCCCTCC
Band lengths:
102-118
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development