BtaALTD0012341-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000010830 | LRP1
Description
low density lipoprotein receptor-related protein 1 [Source:HGNC Symbol;Acc:HGNC:6692]
Coordinates
chr5:56568773-56569135:-
Coord C1 exon
chr5:56568995-56569135
Coord A exon
chr5:56568989-56568994
Coord C2 exon
chr5:56568773-56568907
Length
6 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
TAGACTCACTGTCTCCGCAGACC
3' ss Score
9.36
Exon sequences
Seq C1 exon
AGCCGCCCACGGCCCAGACCTCCCACTGCAAAGACAAGAAGGAGTTTCTGTGCCGGAACCAGCGCTGCCTCTCCTCCTCCCTGCGCTGCAACATGTTCGATGACTGCGGGGACGGCTCTGACGAGGAGGACTGCAGCATGG
Seq A exon
GTGAGG
Seq C2 exon
ACCCCAAGCTGACCAGCTGCGCCACCAACGCCAGCATCTGCGGGGATGAGGCCCGCTGTGTGCGCACCGAGAAAGCCGCCTACTGTGCCTGCCGCACTGGCTTCCACACGGTGCCAGGCCAACCCGGATGCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010830-80-94,81-94-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=79.2)
A:
NA
C2:
PF126622=cEGF=PU(82.6=41.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
GCAACATGTTCGATGACTGCG
R:
CTCATCCCCGCAGATGCTG
Band lengths:
104-110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development