RnoALTD0023973-2/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000015550 | Ptgds
Description
prostaglandin D2 synthase [Source:RGD Symbol;Acc:3433]
Coordinates
chr3:2687164-2687506:-
Coord C1 exon
chr3:2687417-2687506
Coord A exon
chr3:2687413-2687416
Coord C2 exon
chr3:2687164-2687265
Length
4 bp
Sequences
Splice sites
5' ss Seq
TAGGTATCC
5' ss Score
5.06
3' ss Seq
GCCCCTTCTTTATCTACCAGGCA
3' ss Score
9.32
Exon sequences
Seq C1 exon
TGGTAGAAACCGACTACGATGAGTACGCGTTCCTGTTCAGCAAGGGCACCAAGGGCCCAGGCCAGGACTTCCGCATGGCCACCCTCTACA
Seq A exon
GTAG
Seq C2 exon
GCAGAGCCCAGCTTCTGAAGGAGGAACTGAAGGAGAAATTCATCACCTTTAGCAAGGACCAGGGCCTCACAGAGGAGGACATTGTTTTCCTGCCCCAACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015550-7-10,8-10-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006118=Lipocalin=FE(26.9=100)
A:
NA
C2:
PF0006118=Lipocalin=FE(23.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGATGAGTACGCGTTCCTGTT
R:
CTCCTTCAGAAGCTGGGCTCT
Band lengths:
97-101
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]