BtaINT0109840 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13989209-13989743:-
Coord C1 exon
chr3:13989531-13989743
Coord A exon
chr3:13989298-13989530
Coord C2 exon
chr3:13989209-13989297
Length
233 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
ACCTGTGTCTGTTTGTGCAGATG
3' ss Score
9.84
Exon sequences
Seq C1 exon
GAAGCCAGGAGCCGATCACCATGATGCCCACCCCTCCGGTGGCCTATAACTCGCTTGGGGCAGTGATTGGCATCGCAGTGCTGGGGTCCCTGGTGGTGGCCCTGGTGGCGCTGTTCATTGGCTACCGTCACTGGCAAAAGGGCAAGGAGCATCAGCACCTGGCAGTGGGCTACAGCAGCGGACGACTGGACGGCTCTGAGTATGTCATGCCAG
Seq A exon
GTGAGCTGGCCCGGGGTAGGACTCACGTGCGCGCTGACTCTTCGGCACAGGGCAGGTGGGATGCGGGGCTTCTGCATCCCTCCCTGGACCTAGGAGATGGGAAGCGGGGAGCTGGAGAGAGGAAGGGAGGTCAGCGAGGCCAACTGCGGGTCTCCTGGGACAGAACGGCTGTCTTGGGCCCAGGCCTGTGTCTGACCTGGCAGGCCACCCCGCACCTGTGTCTGTTTGTGCAG
Seq C2 exon
ATGTCCCTCCGAGCTACAGTCACTACTACTCCAACCCCAGCTACCACACCCTATCACAGTGCTCACCGAACCCCCCACCCGCTAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.400
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:
CAGGAGCCGATCACCATGATG
R:
CTTCTTAGCGGGTGGGGG
Band lengths:
297-530
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]