BtaALTD0015329-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000004547 | OLR1
Description
Bos taurus oxidized low density lipoprotein (lectin-like) receptor 1 (OLR1), mRNA. [Source:RefSeq mRNA;Acc:NM_174132]
Coordinates
chr5:100244330-100246343:+
Coord C1 exon
chr5:100244330-100244430
Coord A exon
chr5:100244431-100244439
Coord C2 exon
chr5:100246248-100246343
Length
9 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
GTCTTTCTGAATCACTCTAGGTT
3' ss Score
9.4
Exon sequences
Seq C1 exon
TCACTCTCTCATTCTTGGAATACATTTGAAAATGACTGTTGATGACCCCAAGGGTATGAAAGATCAACTTGATCAGAAGCCAAATGGCAAGACAGCAAAAG
Seq A exon
GTACTACAG
Seq C2 exon
GTTTTGTTTCCTCTTGGAGGTGGTACCCTGCTGCTGTGACTCTAGGGGTCCTTTGTCTGGGATTACTGGTGACTGTTATATTGTTGATACTGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004547-0-0,1-0-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.778 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF083915=Ly49=PU(22.0=84.8),PF041569=IncA=PU(16.1=78.8),PF0055814=Vpu=PU(26.1=72.7),PF145841=DUF4446=PU(24.5=69.7),PF148511=FAM176=PU(21.6=66.7)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCAAGGGTATGAAAGATCAACT
R:
CTAGAGTCACAGCAGCAGGGT
Band lengths:
101-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development