BtaINT0109850 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13994181-13995282:-
Coord C1 exon
chr3:13995039-13995282
Coord A exon
chr3:13994302-13995038
Coord C2 exon
chr3:13994181-13994301
Length
737 bp
Sequences
Splice sites
5' ss Seq
CACGTATGT
5' ss Score
7.26
3' ss Seq
TCACCCCCTCTGCTCAACAGCTG
3' ss Score
7.5
Exon sequences
Seq C1 exon
CTTGTGCCCCAGGAGTGTGGGGGCCGAAGTGTGACAAGCCCTGCAACTGCGGCAACAGCAGCTCCTGTGACCCCAAGAGTGGGGCATGTTCCTGTCCCTCTGGCCTGCAGCCCCCACACTGCCTTCAGCCCTGCTCCCCTGGCCTCTATGGCCCTGCCTGCCAGTTCAGCTGCCAGTGCCATGGGGCGCCCTGTAACCCCCAGACCGGAGCCTGCCTCTGCCCCCCAGAGAGAACCGGGCCCAC
Seq A exon
GTATGTAACGGGAGGAACGCACACTTAACGGGATCGCAGACCCGGATGCACGGGCACATACGGGGACAGCAGGGGACTCAGGATCCTCAGTTTGGGGATGCAACCAAGGGGCCAAGATCCTGGTCCCAGCTTTGCTGTTCCCTGGTGGAGCAACCTTGAACGCATTACTGTCTCTTCACGAGATTGTATTCTATGAAATGGGAGCAGTGTTGTCCATCTCAAAGGGTTGCTGTGAAGATAACATGAGCCAGCGTGCGAGTGAAAGTATGTCCCCAAGTAGGGCTGAGACAGTCACAGAGAGCCTATTGCACAGCAGGGTGCAGGGGGCGCTGGGGAGTCACAGGAGGGAGATCATCCCTCTAGTTGGAGATCAAAGATCCAGCTTCATGGAGGAGCTCCAGGGTTGAGCCCTTGGGATGAAAACTATGGCAGGCAGAGATGTTCCCCCCAGAGAGAGACCAGCATGAGCAAAGGTGGAATGGAGGGCTGTGGAGAGCAGACAGACCACCCATGGGCTCTTCACTCTGTCCCACTTGATGGGGCTGTGTGTCCCTGCCATTTCCAGTCCTGGAAACTTTTGATCCCTGCCGGGCCCAACAGGGAAGGGGGATGAGACACCACGGGGACGGGTGGGTGTGGCTCACTGAACCCTGGGGTCCCGAGGGCCTGGGAGGCAAAGGGGGAATTCCGTAGGTACTGCTTGTTTACAGACTGACCTCACCCCCTCTGCTCAACAG
Seq C2 exon
CTGCGAGGTGTCCTGTTCACCCAGTAGTGTTGGCTTCTCCTGCCCCAGCACTCCGCCTTGCCAAAATGGGGGAGTCTTCCAGGCCTCCCAGGATTCCTGCAGCTGCCCACCTGGATGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:7
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:
PF126612=hEGF=PU(61.5=19.5)
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:
CTTGTGCCCCAGGAGTGTG
R:
AGGAATCCTGGGAGGCCTG
Band lengths:
342-1079
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]