BtaINT0109838 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13989934-13990294:-
Coord C1 exon
chr3:13990166-13990294
Coord A exon
chr3:13990063-13990165
Coord C2 exon
chr3:13989934-13990062
Length
103 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
CCTCTTCCACTTTCTCCCAGGCT
3' ss Score
8.92
Exon sequences
Seq C1 exon
CATGCCCTTTGGGACACTGGGGAGCCAACTGTGCCCAGCTCTGCCAGTGTCGCCATGGTGGGACCTGCCACCCCCAGGATGGGAGCTGTTTCTGTCCCCCAGGCTGGACCGGACATCTCTGCTTGGAAG
Seq A exon
GTACCAACAGAAGGGCAACTCCATGCCCCGACCGCCAGCCCTAGCCCAAGGAGGGGACTGCCATTCCCTTGCCCCTCTGATCTCCTCTTCCACTTTCTCCCAG
Seq C2 exon
GCTGTTCTCCAGGGATGTTTGGTGCCAACTGCTCCCAACCGTGCCAGTGTGGTCCTGGAGAGAGGTGCCACCCAGAGACTGGGGCCTGTGTGTGTCCTCCAGGGCACAGTGGTGCCCCCTGCAGGATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:17
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:
PF0005319=Laminin_EGF=PD(30.2=29.5)
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:
CTTTGGGACACTGGGGAGC
R:
CACTGTGCCCTGGAGGACA
Band lengths:
234-337
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]