DreALTA0028353-3/3 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000029252 | ssb
Description
Sjogren syndrome antigen B (autoantigen La) [Source:ZFIN;Acc:ZDB-GENE-030131-223]
Coordinates
chr6:3556227-3556871:+
Coord C1 exon
chr6:3556227-3556294
Coord A exon
chr6:3556794-3556814
Coord C2 exon
chr6:3556815-3556871
Length
21 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
GATTAATTAATTATGTTTAGTTT
3' ss Score
2.75
Exon sequences
Seq C1 exon
ACTTCACGTTCACTCGGCGTTGAGTGTGGCGTTTCATCGCTATCAGACAAAAACAGAGCGCAAATAAA
Seq A exon
TTTGTTGTGATTCTAGCAAAG
Seq C2 exon
ATGGCTGACAATCAGGAAATGTCTCCCCTGGAGAAGAAGGTGGCGGAGCAGATTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000029252-1-3,1-2,1-1-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.526
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0538312=La=PU(8.5=26.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
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:
GTTGAGTGTGGCGTTTCATCG
R:
AATCTGCTCCGCCACCTTCTT
Band lengths:
104-125
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]