DreALTA0015969-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000061517 | lrp1bb
Description
low density lipoprotein receptor-related protein 1Bb [Source:ZFIN;Acc:ZDB-GENE-070912-401]
Coordinates
chr9:36838558-36841034:+
Coord C1 exon
chr9:36838558-36838677
Coord A exon
chr9:36840793-36840863
Coord C2 exon
chr9:36840864-36841034
Length
71 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
ATTAATAACTCAACGGGCAGGAC
3' ss Score
1.96
Exon sequences
Seq C1 exon
AAATCAATGAGTGTCTTTATTTTGGCACTTGCTCTCACTATTGCACAAACACAAAAGGATCATACAAATGTACATGTGACAAAAATTATAAGGATATGAATGGTAGCTGCATAGCAAAAG
Seq A exon
GACCAGAAGATCGAGTGCTCTACATAGCTAATGACACTGAAATCCGAAGTTTTGTGTATCCATTTAACCAG
Seq C2 exon
AGCCATGGACACAAAGTACATGCTCGCATCGAGGAAAATGCCCGCATTATTGGGATGGATGCTCTGTTTCACCAACAAAAGTTTATCTGGGCTACTCAATTTAATCCCGGTGGACTTTTTTACAAAGACATCCTAAACAGGAGTCAAACTAAAACAAATGTTGGCATCATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061517-77-79,77-78-2/2
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=92.5)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACTTGCTCTCACTATTGCA
R:
GGTGAAACAGAGCATCCATCCC
Band lengths:
170-241
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]