BtaINT0109852 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13993563-13993995:-
Coord C1 exon
chr3:13993859-13993995
Coord A exon
chr3:13993776-13993858
Coord C2 exon
chr3:13993563-13993775
Length
83 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
CACTCCCCAGAGGCACCCAGGTG
3' ss Score
-8.98
Exon sequences
Seq C1 exon
GGCACCATCTGCTCCCTGCCCTGCCCCGAGGGCTTCCATGGACCCAACTGCTCCCAGGAATGTCGCTGTCACAACGGAGGCCTCTGCGACCGATTCACCGGGCAGTGTCGCTGTGCTCCGGGATACACGGGGGACCG
Seq A exon
GTGAGTGGTGTTAGCCCGGGCATGAGGGGTGCGGGGGCGGCTGTGGACGGCGTCTGCCAGGCTCACTCCCCAGAGGCACCCAG
Seq C2 exon
GTGCCGCGAGGAGTGCCCCGTGGGCCGCTTCGGGCAGGACTGTGCTGAGACGTGTGACTGCGCCCCGGGCGCCCGCTGTTTCCCGGCCAACGGCGCGTGTCTGTGCGAACACGGCTTCACCGGGGACCGCTGCGCCGAGCGCCTCTGCCCCGACGGCCTCTATGGCCTCAGCTGCCAGGTGCCCTGCACCTGCGACCCGGAACACAGCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:9
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:
PF126612=hEGF=PD(23.1=6.5),PF126612=hEGF=PU(84.6=23.9)
A:
NA
C2:
PF126612=hEGF=PD(7.7=1.4),PF0005319=Laminin_EGF=WD(100=62.5),PF0005319=Laminin_EGF=PU(18.8=12.5)
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:
GGCTTCCATGGACCCAACTG
R:
CAGTCACACGTCTCAGCACAG
Band lengths:
167-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]