BtaINT0112956 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005947 | PLAU
Description
Bos taurus plasminogen activator, urokinase (PLAU), mRNA. [Source:RefSeq mRNA;Acc:NM_174147]
Coordinates
chr28:29965937-29966216:+
Coord C1 exon
chr28:29965937-29965970
Coord A exon
chr28:29965971-29966108
Coord C2 exon
chr28:29966109-29966216
Length
138 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
CCAACCTTTGTGTTTTCCAGCGA
3' ss Score
8.91
Exon sequences
Seq C1 exon
GGCAGCAATGAAGTTCATAAAGAGTCTGGTGAAT
Seq A exon
GTGAGTATCTACCGCTTGAGTGCAGATATCTTGGAAAAGCCTCAGGGGGCAGCCCCTCCCTGTTCTTGCTTCAAGGCTGGTTCTCCCCTGGCCTACTCCCACGCTCCTTGCTTACCCTCCAACCTTTGTGTTTTCCAG
Seq C2 exon
CGAACTGTGGCTGTCTGAACGGAGGAAAATGTGTAACCTACAAGTACTTCTCCAACATTCAGCGATGCAGTTGCCCAAAGAAATTCCAAGGGGAACACTGTGAGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005947:ENSBTAT00000007806:3
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCAGCAATGAAGTTCATAAAGAGT
R:
TCTCACAGTGTTCCCCTTGGA
Band lengths:
139-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]