DreINT0116051 @ danRer10
Intron Retention
Gene
ENSDARG00000023111 | plg
Description
plasminogen [Source:ZFIN;Acc:ZDB-GENE-030131-1411]
Coordinates
chr20:42797678-42797955:-
Coord C1 exon
chr20:42797841-42797955
Coord A exon
chr20:42797753-42797840
Coord C2 exon
chr20:42797678-42797752
Length
88 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
GTCATTTTCTGTCATACCAGAGG
3' ss Score
4.87
Exon sequences
Seq C1 exon
AGAGTCTGAAATGTGGACAACCAGCAACAAAGCCCAAGCGCTGCTTTGGGCGTATTGTCGGGGGATGTGTTTCCAAACCACATTCCTGGCCTTGGCAGATCAGTCTTAGGACCAG
Seq A exon
GTATAGAAACAAGCTACCCTTCAGTTCACCTTGGTCCTAAATGCCAAGACTATATGCAGTTATTAACTGTCATTTTCTGTCATACCAG
Seq C2 exon
AGGCAAAATTCATTTCTGTGGGGGAACATTAATTGATCCACAATGGGTCGTAACTGCAGCTCACTGCCTTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023111:ENSDART00000045816:15
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:
PF0008921=Trypsin=PU(9.0=51.3)
A:
NA
C2:
PF0008921=Trypsin=FE(11.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGACAACCAGCAACAAAGCC
R:
CAGTGAGCTGCAGTTACGACC
Band lengths:
168-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]