BtaINT0112947 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001244 | PLAT
Description
Bos taurus plasminogen activator, tissue (PLAT), mRNA. [Source:RefSeq mRNA;Acc:NM_174146]
Coordinates
chr27:36747091-36747578:-
Coord C1 exon
chr27:36747441-36747578
Coord A exon
chr27:36747202-36747440
Coord C2 exon
chr27:36747091-36747201
Length
239 bp
Sequences
Splice sites
5' ss Seq
GAAGTGCGT
5' ss Score
4.88
3' ss Seq
CTCTTGCTTCTACTTGGCAGGTT
3' ss Score
6.87
Exon sequences
Seq C1 exon
TGACCTGCAGAGATGGAAAAACGCAGATGACGTACCGCCAACACGACTCCTGGCTGCGACCCCTGCTCAGGGGCAACCAAGTGGAGCACTGCTGGTGCGACGGCGGCCGGGCCCAGTGCCACTCGGTGCCCGTCAGAA
Seq A exon
GTGCGTGTCCATGGTCCCCAGCCCGCCCAGCCCTCTAACAGGGCCTCAGTTTGCTCATCTGTAAAATGGGAGAACAGTTGTATAGACTGTGGGGTCGGCTGTGAAGAGTCAATGAGTTTGGTTTCTGTAAAGTGCTCAGAATTGCGCCTGTGGGGAGGGTGCCCTCTCTTCAACTTTGACTCATGTATTCTTGGGGTGCCTGGAGAGTAATTTGGGGTTCTCTTGCTTCTACTTGGCAG
Seq C2 exon
GTTGCAGTGAACCTTGGTGTTTCAATGGGGGGACATGTCGGCAGGCCCTCTATTCTTCAGACTTTGTCTGCCAGTGCCCAGAAGGGTTCATGGGGAAGCTCTGTGAAATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001244:ENSBTAT00000001642:4
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:
PF0003913=fn1=WD(100=80.9)
A:
NA
C2:
PF0000822=EGF=WD(100=86.8)
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:
CCTGCAGAGATGGAAAAACGC
R:
ATTTCACAGAGCTTCCCCATGA
Band lengths:
244-483
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]