GgaALTA0006524-1/2 @ galGal4
Alternative 3'ss
Gene
ENSGALG00000012407 | LRP1B
Description
low density lipoprotein receptor-related protein 1B [Source:HGNC Symbol;Acc:HGNC:6693]
Coordinates
chr7:31519751-31526312:-
Coord C1 exon
chr7:31526130-31526312
Coord A exon
NA
Coord C2 exon
chr7:31519751-31519814
Length
0 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
ATACCTCCATCTGCCTACAGCCT
3' ss Score
7.51
Exon sequences
Seq C1 exon
AAACTCCTGCTCCTGGACGATGCAATGGGAAGGAATTTCAGTGCAGTCCTGATGGGAACTGTGTTCCTGAGCTGTGGCGCTGTGATGGAGAAAAGGACTGTGAAGATGGCAGTGATGAAAAAGGCTGTAATGGAACTTTACGTCTGTGTGATGAAAAGACAAAGTTCTCCTGTGTGAGTACAG
Seq A exon
NA
Seq C2 exon
CCTGAGAAGCTCTGCAATGGGAGAAGAGATTGTCCTGATGGATCTGATGAAGGCGATCTTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012407-33-52,33-51-1/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence exclusion)
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=61.3),PF0005713=Ldl_recept_a=PU(35.9=22.6)
A:
NA
C2:
PF0005713=Ldl_recept_a=PD(61.5=35.3),PF0005713=Ldl_recept_a=PU(93.0=58.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACTCCTGCTCCTGGACGAT
R:
AGATCGCCTTCATCAGATCCA
Band lengths:
242-379
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]