BtaINT0109847 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13996342-13996752:-
Coord C1 exon
chr3:13996648-13996752
Coord A exon
chr3:13996443-13996647
Coord C2 exon
chr3:13996342-13996442
Length
205 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CCAGCTCTGGATCTCCCCAGTGT
3' ss Score
5.26
Exon sequences
Seq C1 exon
TTTCACCACCACTACCAAGGAGTCGCTCTCCCGCCCCTTCAGCCTGCTCCCCTCGGAGCCCTGCAGCCGGCCCTGGGAGAGCCCGCACACCTGCCCCCGGCCCAC
Seq A exon
GTGAGTGCCTGTCCCCTCCGTGGGCAGGTGTGGTGTGTTGTGTGGGTGTGTGGCTGGGCGGGGAGCAAAGAGAGAGTGTTCTTCCTCTGCTCCCCCAGTGTAGAGCGCTGGGAGGCGGCCCAGGCCCTGCCAGGGCCACACTGGGGCGGGGTGGAAGCCGGGGCCTCTGCAGGGGAGACTGAGGGCCAGCTCTGGATCTCCCCAG
Seq C2 exon
TGTTGTCTACCGGACCGTGTACCGCCAAGTGGTGAAGACGGAGCACCGGATGCGGCTGCAGTGCTGCCGGGGCTTCTATGAGAGCCGCGGGGCCTGTGTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:4
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCACCACCACTACCAAGGAGT
R:
CCCCGCGGCTCTCATAGAAG
Band lengths:
196-401
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]