BtaINT0110433 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014127 | PGHS-2
Description
Bos taurus prostaglandin-endoperoxide synthase 2 (prostaglandin G/H synthase and cyclooxygenase) (PTGS2), mRNA. [Source:RefSeq mRNA;Acc:NM_174445]
Coordinates
chr16:69269814-69270183:-
Coord C1 exon
chr16:69270067-69270183
Coord A exon
chr16:69269958-69270066
Coord C2 exon
chr16:69269814-69269957
Length
109 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGT
5' ss Score
10.16
3' ss Seq
TCTTTTTCTTCTCATTGCAGCCG
3' ss Score
10.7
Exon sequences
Seq C1 exon
CAAATCCTTGCTGTTCCCATCCATGCCAGAATCGAGGTGTATGTATGAGTGTAGGATTTGACCAGTATAAATGTGACTGTACCCGAACAGGATTCTACGGTGAAAACTGTACCACAC
Seq A exon
GTAAGTTTGTTGTTGAGTGCCCTCATTTGGAATGGGGTATATACAGTTATCATTTTACAGAATTGTGCTTATAATGTGTCCCGTTAATTTCTTTTTCTTCTCATTGCAG
Seq C2 exon
CCGAATTTCTGACAAGAATAAAATTACTCCTGAAACCCACTCCCAACACAGTGCACTACATACTTACCCACTTCAAAGGAGTCTGGAACATTGTCAATAAGATCTCCTTCCTGCGAAATATGATTATGAGATATGTGTTGACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014127:ENSBTAT00000018774:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=82.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTTGCTGTTCCCATCCATG
R:
TCATAATCATATTTCGCAGGAAGGA
Band lengths:
242-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development