DreINT0115256 @ danRer10
Intron Retention
Gene
ENSDARG00000062707 | plat
Description
plasminogen activator, tissue [Source:ZFIN;Acc:ZDB-GENE-081104-181]
Coordinates
chr8:2207184-2208730:-
Coord C1 exon
chr8:2208526-2208730
Coord A exon
chr8:2207321-2208525
Coord C2 exon
chr8:2207184-2207320
Length
1205 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
TCTCTGTGATCTGCGTGTAGATA
3' ss Score
7.02
Exon sequences
Seq C1 exon
GTGTGTGTGGTCAGCGTGAGTCTCCGTCTAACCTGCTGCCGATGTTCAGGATTCGTGGTGGTCAGGCCAGTGACATCAGAGAGCAGCCGTGGCAGGCGGCCATCACCGTTTACCTGCCGCGCTCAAAAACACACAACTTCCTGTGCGGTGGCGTCCTCATTGACTCCTGCTGGATCCTCTCAGCCGCTCACTGCTTCCAGCAGAG
Seq A exon
GTGTGTGTGTGTGTGTGTGTGTACGTGTTTTTCACACAGTTTAATCACACAGAATGAGTTTAATCAGAGAGTAAAGCTGCACACTCTCTCTCCTTTGATGGTTGGGTTAAGGGGTGGGGTGGGGTGGGGTGAGGGCTATATAATATACGGTTTGAACATTAAAAAATGAATGGAAACCTATGTAATGTACCCACTTTTTACAAAAACAAACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTATAGATGGATGGATGGATGGATAAATGGATGGATAAATGGATGGATAAATGGATGGATGGATTGATGGATTGATCAACAGATGTAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGAAAACAGAGAGACAGACAGACAGACAGGCAGATGGAGTTATAAATATATAGGTGGGTGGAAAGAGTAATAGATAGACAGACAGACAGAAATTTAAAACAATAGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATATATAGAACAACAGAGACAGACAGACAGACAGACAGATAGATAGATAGATAGATTAGATGGATGGATAAATGGATGGATAAATAAAACAAAAGAGACAGATGGATGGATGGATGGATGGATGGATGGATGGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATGGATAGATGGATGGATGGATGGATGGATGGATGATGGATATATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATGATAGATGGATGGATGGATGGATAGATAGATAGATAGATAGATGGATAGATGGATGGATGGATGGATGGATGATGGATATATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATGTGTGCTGTGTGGTGTTTTGATTTTGTTGTTGTTGTATACTTGATGATAAAGAACAATGTTTTTCTTCTTCTCTCTGTGATCTGCGTGTAG
Seq C2 exon
ATACGAGGAGAGTCGTTTGCGGGTGGTTTTGGGTCGAACCTTCAGGCTCCAGAACTCCAGCAGTGAGCAGATCTTTGACGTGGAGAAATACTGGATTCATGAGCAGTATGACGACGAGACCTACGACAACGATATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062707:ENSDART00000147275:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(21.2=73.9)
A:
NA
C2:
PF0008921=Trypsin=FE(19.2=100)
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:
GTGTGTGTGGTCAGCGTGAG
R:
CGATATCGTTGTCGTAGGTCTCG
Band lengths:
342-1547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]