DreALTA0019554-2/2 @ danRer10
Alternative 3'ss
Gene
ENSDARG00000042186 | paplnb
Description
papilin b, proteoglycan-like sulfated glycoprotein [Source:ZFIN;Acc:ZDB-GENE-030131-6023]
Coordinates
chr20:33600288-33601455:-
Coord C1 exon
chr20:33601375-33601455
Coord A exon
chr20:33600400-33600429
Coord C2 exon
chr20:33600288-33600399
Length
30 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAAA
5' ss Score
2.54
3' ss Seq
TGCTGATATTTGCACTGTAGTTT
3' ss Score
4.2
Exon sequences
Seq C1 exon
CGGTGCCCAGTGTGCAGAACCCCAATGGTTACGAGAGCTCCTTGCGTGGATTTGTGTCTTACACTCACGGCCCAGTATCAG
Seq A exon
TTTACAGACCAAGCGATCCTTATCCCACAG
Seq C2 exon
TGACTGGTCCTCATTGCGCTCAGTCTCATTACGGCTGCTGTCCTGATGGCCACACTACAGCCTCTGGGCCTCGTGGAGAAGGCTGTGCTCATGATGACTGCCAGAGATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042186-10-13,10-12-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.327 A=NA C2=0.035
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
TACACTCACGGCCCAGTATCA
R:
CATGAGCACAGCCTTCTCCAC
Band lengths:
115-145
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]