BtaALTA0016793-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000024632 | LRP1B
Description
low density lipoprotein receptor-related protein 1B [Source:HGNC Symbol;Acc:HGNC:6693]
Coordinates
chr2:56847552-56849510:+
Coord C1 exon
chr2:56847552-56847671
Coord A exon
chr2:56849269-56849341
Coord C2 exon
chr2:56849342-56849510
Length
73 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TTTATTATAATAATCTCCAGGCT
3' ss Score
5.5
Exon sequences
Seq C1 exon
ACCTTAATGAATGTTTGGTATTTGGCACGTGTTCCCACCAATGTATAAATACAGAAGGATCATATAAATGTGTGTGTCACCAGAATTTTCAAGAAAGAAATAACACCTGCATAGCAAAAG
Seq A exon
GCTCTGAAGATCAAGTTCTCTACATTGCTAATGACACTGATATCCTGGGTTTTATATATCCATTCAACTACAG
Seq C2 exon
TGGCGATCATCAACAAATTTCTCATATTGAACATAATTCAAGAATAACAGGGATGGATGTATATTATCAGAGAGATATGATTATTTGGAGTACTCAGTTTAATCCAGGCGGAATTTTCTACAAAAGAATCCCTGGAAGAGAAAAAAGGCAAGCAAACAGTGGCTTGATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024632-26-27,26-26-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=WD(100=90.2)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGTGTGTGTCACCAGAATTTTCA
R:
TTCCGCCTGGATTAAACTGAGT
Band lengths:
167-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development