BtaINT0109848 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13995552-13996442:-
Coord C1 exon
chr3:13996342-13996442
Coord A exon
chr3:13995645-13996341
Coord C2 exon
chr3:13995552-13995644
Length
697 bp
Sequences
Splice sites
5' ss Seq
TCCGTGAGT
5' ss Score
8.93
3' ss Seq
AACCCCCATCTCTGCCCCAGCGC
3' ss Score
6.3
Exon sequences
Seq C1 exon
TGTTGTCTACCGGACCGTGTACCGCCAAGTGGTGAAGACGGAGCACCGGATGCGGCTGCAGTGCTGCCGGGGCTTCTATGAGAGCCGCGGGGCCTGTGTCC
Seq A exon
GTGAGTCCAGGGGGGCTACTCCCCTGCCCTCCGCCTCCCCGGCCCTGTCTGTCTCGAAGGACAAAGCTGCCACTTCAAACCTCTGTCTCTAGTTGACCCCAGGTCTCTCCCACTCCCTCTTTCCAAGTCCGTCGGCTGTCTCTGGCTCTGCAGCTCTGTCTTGGGGCCGCCTGGGTCTCTTTGTCCCTGGGCTTGGCGTCTGCTTCTCTCTCTGACTCTGCCTGTCCCTATCTGTTTTGACTTGTCGCTGTCCAGTCTCTCCTGTCCCCTGTCCCCGGCACCCTGAAATCTCCGGAGTGGAGCCTGCTCGCTCTGTCTCCCCTTTCCTCAGCTTGGACCATCACCAACCCCCTACAGAGACTCCTACCCAGCCTGAGCACCCCAGCCCCTCTCTGGACAGCATCCATATCTGATTCCTATGTGAGGAACCTCACCCCCACCCTCGTTTCCCAGCAAGGTGCTTTGAGAAGTTCACAGAAAGGAGCTGGGGAGCCCAGAATCCTGAGGTCTTGACATGCTCTGACCTGAGTTGCTTACTCTCAGTCTTTCTGTGTCTTGAGAGGCTGAAATGCTGCTTGGCAGGCTAACTCCAGGTCCCCGGTATGGGAGGAAGCTGGGGTTGGGCTTCAGAGGATAAAAGGTGGGTAGGGCAGGAATGGAAGCATCTTCTCACTCCCAACCCCCATCTCTGCCCCAG
Seq C2 exon
CGCTTTGTGCTCAGGAGTGTGTCCATGGCCGCTGTGTGGCACCCAATCAGTGCCAATGTGTGCAAGACTGGCGGGGTGACGACTGCTCCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:5
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:
TGTTGTCTACCGGACCGTGTA
R:
ACTGGAGCAGTCGTCACCC
Band lengths:
193-890
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]