DreALTA0028355-4/4 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000029252 | ssb
Description
Sjogren syndrome antigen B (autoantigen La) [Source:ZFIN;Acc:ZDB-GENE-030131-223]
Coordinates
chr6:3564625-3565010:+
Coord C1 exon
chr6:3564625-3564817
Coord A exon
chr6:3564894-3564941
Coord C2 exon
chr6:3564942-3565010
Length
48 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
CATTTACACTGTGATTGCAGGAG
3' ss Score
3.98
Exon sequences
Seq C1 exon
GGCACCATCCTGTTCCACTCCAACGCTAAAGAGGCTCTCCAGAAAGTCCGAGAGGCTCTCAACGGGGAGGATCCCAAGGTGAAGGAGCAGGCCGTTCAGTGGGAGATTCTGGAGGGAGACGTGGAGATGGAAACACTGAAGAAAATCATCGAGGATCAGCAGGAGTCAATAAACAAACGCAAAGGAGGCCGAG
Seq A exon
GAGGGTTCAGGGGTCGAGGAAGAGGACGAGGAGGCCGCAGAGACCGAG
Seq C2 exon
GAGGACGAGAACACACTCAGTTCAAGGGAAAGAAGACCAAGTTTGATAGCGATGAAGAGGGAGATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029252-17-20,17-19,17-18,17-17-4/4
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.677 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF087776=RRM_3=PD(61.2=96.9)
A:
NA
C2:
NO
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
AGGATCCCAAGGTGAAGGAGC
R:
ACTGAGTGTGTTCTCGTCCTC
Band lengths:
147-195
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]