BtaINT0109836 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13991171-13991632:-
Coord C1 exon
chr3:13991486-13991632
Coord A exon
chr3:13991297-13991485
Coord C2 exon
chr3:13991171-13991296
Length
189 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGG
5' ss Score
4.51
3' ss Seq
CACGAGCCCCTTTCCCCCAGCCT
3' ss Score
4.56
Exon sequences
Seq C1 exon
GTACCCGCTGCCACCAGCCCTGCCCTGAGGGCTTCTGGGGAGCCAACTGCAGCAACGCTTGTGCCTGCAGGAACGGGGGCACCTGCATCCCCAAGAATGGCAACTGCGTCTGTGCACCCGGATTCCGAGGCCCTTTCTGCCAGAAAT
Seq A exon
GTGAGGCTCCCTCCTCTCCGTCTGCCTTTCAGTCCAGTGCCAGATGCCAGAAGCCCCCACTCTACCCCTCTTGGCCTGCTGTGCTGACTGCAGTCTATGGGCTGGTTACACACGGTGGGAGAGGGTGGAGTCAAGGGCTGACTGAGGGTTGGCCCCTGCCCCCAGTCACCACGAGCCCCTTTCCCCCAG
Seq C2 exon
CCTGTCAGCCTGGCCGCTACGGCAAACGCTGTGTGCCCTGCAAGTGTGCCAACCATTCCTCCTGTCACCCTTCGAATGGGACCTGCTACTGCCTGGCTGGCTGGACCGGCCCTGACTGCTCTCAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005319=Laminin_EGF=PD(44.0=44.0)
A:
NA
C2:
PF0005319=Laminin_EGF=PU(67.4=67.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCTGGGGAGCCAACTGC
R:
GTTGAGAGCAGTCAGGGCC
Band lengths:
242-431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]