BtaINT0112888 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032515 | PLA2R1
Description
Bos taurus phospholipase A2 receptor 1, 180kDa (PLA2R1), mRNA. [Source:RefSeq mRNA;Acc:NM_175051]
Coordinates
chr2:36480686-36481131:+
Coord C1 exon
chr2:36480686-36480750
Coord A exon
chr2:36480751-36481024
Coord C2 exon
chr2:36481025-36481131
Length
274 bp
Sequences
Splice sites
5' ss Seq
TCGGTATGG
5' ss Score
7.88
3' ss Seq
ATTTCTTAATTTTCTTGCAGTTG
3' ss Score
8.77
Exon sequences
Seq C1 exon
CTATCAAAGTATGGTGTAAATTGGTGGATTGGACTTCGAGAAGAAAGAGCCAGTGATGAATTTCG
Seq A exon
GTATGGACCTAGATTAATTTGCATTTAACCCTGGTTGACGGGTTTTTTATTTGCAGAGTGATTGGACTAGATCTTAGTGGTTAATGTGTTGAATAGCTTTCAAACATTATCTTTAACTTATAAATTTTCATTTCCCTAACTAAAGACATGAGTATTTTTTTTAATTTAATAAAATAATTATGCCTCCAGTCCATACCCCAGAACTCCAAAAATGGTGTTAGAGACTGAATGTGCAGAATGAGAGAAGACCTTTAATTTCTTAATTTTCTTGCAG
Seq C2 exon
TTGGAGAGATGGATCACCAGTAATATATCAGAACTGGGACAAAGGAAAAGAAAGATCTATGGGCCTTAATGAGAGCCAGAGGTGTGGCTTCATTTCATCCATAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032515:ENSBTAT00000046112:18
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:
PF0005916=Lectin_C=FE(18.8=100)
A:
NA
C2:
PF0005916=Lectin_C=FE(32.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCAAAGTATGGTGTAAATTGGTGGA
R:
TGGATGAAATGAAGCCACACCT
Band lengths:
164-438
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]