BtaINT0119601 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015074 | PTGDS
Description
Bos taurus prostaglandin D2 synthase 21kDa (brain) (PTGDS), mRNA. [Source:RefSeq mRNA;Acc:NM_174791]
Coordinates
chr11:106248712-106249071:-
Coord C1 exon
chr11:106248955-106249071
Coord A exon
chr11:106248814-106248954
Coord C2 exon
chr11:106248712-106248813
Length
141 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGT
5' ss Score
7.54
3' ss Seq
GGCTGCTCCCCACTGCCCAGGCC
3' ss Score
4.69
Exon sequences
Seq C1 exon
ACTGGAGCAGCACCCACGAGGTGTCAGTGGCAGAGACAGACTACGAGACCTACGCCCTGCTCTACACAGAGGGTGTCCGAGGCCCGGGGCAGGACTTCCGCATGGCCACGCTCTACA
Seq A exon
GTACGTGTCCCACGCCGCGCCCTCCACCGGGCCTGGGGCTCCGCCCGCGGGGGTGTCTGGGGGCGCCCCGGGCTTGGGAGCAGGGGCAGAACGGGGATCCTCCAGACAAACGGAGGCCGAAGGCTGCTCCCCACTGCCCAG
Seq C2 exon
GCCGCTCCCAGAACCCCCGAGCCGAGGTCAAGGAACACTTCACCACCTTTGCCAAGAGCCTGGGCTTCACAGAGGAAGGCATTGTGTTCCTGCCGAAGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015074:ENSBTAT00000020065:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.050 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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGGAGCAGCACCCACGAG
R:
CAGTCTTCGGCAGGAACACAA
Band lengths:
218-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development