DreALTA0015978-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000100143 | lrp6
Description
low density lipoprotein receptor-related protein 6 [Source:ZFIN;Acc:ZDB-GENE-090821-1]
Coordinates
chr4:174705-175270:-
Coord C1 exon
chr4:175145-175270
Coord A exon
chr4:174916-174941
Coord C2 exon
chr4:174705-174915
Length
26 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAC
5' ss Score
5.99
3' ss Seq
GTGTGTGTGTGTGTCCTCAGAGC
3' ss Score
11.19
Exon sequences
Seq C1 exon
GTAAACACCCCTGCACGTCTGATAACGGCGGCTGCACACACATCTGCATCGTGAAAGGAGACGGAACCACACGCTGCTCCTGCCCCATTCACCTGGTGCTGCTGCAGGACGAGCTCTCGTGCGGAG
Seq A exon
AGCCGCCCACGTGTTCTCCAGAGCAG
Seq C2 exon
TTCTCGTGTGTGTCGGGTGAGGTGGACTGTATCCCGCAGGCGTGGCGCTGTGACGGGTTTGCGGAGTGTGATGACAGCAGTGATGAGCGGGACTGTCCTGTCTGCTCCAGCCGGGAGTTCCAGTGTGACAGCCGGCAGTGTGTGGACGCGGCGCTGCGCTGCAACGGAGAGATCAACTGCCAGGACCGCTCCGACGAGAACAAGTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100143-39-37,39-36-2/2
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:
PF146701=FXa_inhibition=WD(100=86.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=48.8),PF0005713=Ldl_recept_a=WD(100=46.2),PF0005713=Ldl_recept_a=PU(0.1=0.0)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATCGTGAAAGGAGACGGAA
R:
GATACAGTCCACCTCACCCGA
Band lengths:
114-140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]