DreALTD0010962-2/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000004789 | lrp1ba
Description
low density lipoprotein receptor-related protein 1Ba [Source:ZFIN;Acc:ZDB-GENE-050208-608]
Coordinates
chr22:14531837-14533167:-
Coord C1 exon
chr22:14533068-14533167
Coord A exon
chr22:14533043-14533067
Coord C2 exon
chr22:14531837-14532208
Length
25 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGAG
5' ss Score
1.33
3' ss Seq
TTTCCGACTTCTTTACCCAGGTA
3' ss Score
8.34
Exon sequences
Seq C1 exon
AGCCTACGCCAACGGATCCATCCGACGTGCTTCCAAAAAAGACGCTGTGGATGTAGTGACCATCAGGAGTGGCTTGAGTGTCAGCCTGAAAGATGTGAAG
Seq A exon
GTCTTTAACCAGGATCGGGAGAAAG
Seq C2 exon
GTACAAACGCTTGCAGCAAATCAAACGGAGGATGCCAGCAACTTTGCTTTTACTTGGGGAATAACCGGAAAACATGCGCATGTGCTCATGGATATCTTGCTCAGGATGGACTCAGGTGTATCCGGTATGAGGGATACCTGCTTTACTCTGAGAGGACCGTCTTAAGGACTATTCATCTATCAGACGAGAATGACCTCAACTCGCCTATTAGGGCATACGAGAACCCAGTTTATTTTAAAAACATCATCGCTTTGGCCTTTGATCATCGACAGAACGCACATGGAACTAATCGGATTTTCTTTAGCGACGTTCACTATGGGAATATACAAGTCATCAATGACGACTGGACTGGAAGGCGCATCATTGCCGAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000004789-41-43,42-43,43-43-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=29.0)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATCCGACGTGCTTCCAAAA
R:
TCCTCCGTTTGATTTGCTGCA
Band lengths:
115-140
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]