BtaINT0109851 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13993859-13994301:-
Coord C1 exon
chr3:13994181-13994301
Coord A exon
chr3:13993996-13994180
Coord C2 exon
chr3:13993859-13993995
Length
185 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGA
5' ss Score
8.54
3' ss Seq
TGACCTTTCAGCCCCCACAGGGC
3' ss Score
4.94
Exon sequences
Seq C1 exon
CTGCGAGGTGTCCTGTTCACCCAGTAGTGTTGGCTTCTCCTGCCCCAGCACTCCGCCTTGCCAAAATGGGGGAGTCTTCCAGGCCTCCCAGGATTCCTGCAGCTGCCCACCTGGATGGACG
Seq A exon
GTATGAAGGGTGGGGCCTGTGGGTATGAATTCTCCAGGGCTTCTGAGGGGGATGTGTGTGAGGAGGGTAGGCTGTGGGGGCCCTGGAGAGGTTTGAGTGTTTGCCGGTATAGGGTACTGGTGGGTCCTTGACCATGGGGAGGAGGCTGGGCTCCTGGGGCTCTCTTGACCTTTCAGCCCCCACAG
Seq C2 exon
GGCACCATCTGCTCCCTGCCCTGCCCCGAGGGCTTCCATGGACCCAACTGCTCCCAGGAATGTCGCTGTCACAACGGAGGCCTCTGCGACCGATTCACCGGGCAGTGTCGCTGTGCTCCGGGATACACGGGGGACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:8
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:
PF126612=hEGF=PU(61.5=19.5)
A:
NA
C2:
PF126612=hEGF=PD(23.1=6.5),PF126612=hEGF=PU(84.6=23.9)
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:
GGTGTCCTGTTCACCCAGTAG
R:
GTGTATCCCGGAGCACAGC
Band lengths:
243-428
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]