GgaINT0043600 @ galGal4
Intron Retention
Gene
ENSGALG00000005086 | PLAU
Description
urokinase-type plasminogen activator preproprotein [Source:RefSeq peptide;Acc:NP_990774]
Coordinates
chr6:15063457-15064406:-
Coord C1 exon
chr6:15064217-15064406
Coord A exon
chr6:15063612-15064216
Coord C2 exon
chr6:15063457-15063611
Length
605 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
ATCTTTTTTTTCTTTAACAGGAC
3' ss Score
12.28
Exon sequences
Seq C1 exon
AGCGTACATGTGGCCAAAGAAGCTTCAGCAAGTACTTCAAGATTGTTGGTGGAAGCCAGGCTGAGGTTGAGACTCAGCCTTGGATAGCTGGCATCTTCCAAAACATAATGGGCACTGACCAGTTTCTGTGTGGTGGCAGCCTCATTGACCCCTGCTGGGTGCTTACAGCAGCACACTGTTTCTATAATCC
Seq A exon
GTAAGTGTACTGTTCTGAACTTCTGCATCCTTCCTCTCTGCAACTTACTTCAATAGATTGCTATATTTTCCCCTCACTGCTGAATGAGCAAACCTTCAAATCTGCCATAGTTATGACACTCTCTCTTAACTAGAGCAAGAGGAGCAGCCATGAACCTAAAGCCTTTGGAAGTCCACACATAGCAAAATACAAACATCTTCGTGGATTATGCAGCTGAAACAATTTTAGCTTAAAGTGGAACCAAGATTTCCACTTGAACTTAGATGTTCCTAAAACCTAAAAATTGTCTTGATGTACATTCAGTACATTTTTTTTTTCCCCTGTGGAAAGCAGATCCCGCTTGCATTCTGCTAGGAAGTCTCACTGCTGATGCCAGACATGAGCAGCATCTAGCCAGGTGTGCCTCTCACAGTGCCCCAACATCTAGCTTATTCACTTCAAGTGGTGAAACAGCAGACCTTCCTGTAGCACAGTCTATCAACTTTCTTATTGCTTTTTCTTGTCTGCATTTAAGTAAACATGAAACCAAACTGGAACTCGATTTTAAGTTGTTAAACTTACTCTCAGAAGCAGTAGCCTTCATGAATCTTTTTTTTCTTTAACAG
Seq C2 exon
GACAAAAAAGCAACCAAACAAGTCAGTCTACAAAGTCTTCCTTGGGAAGTCCATACTGAATACTAATGATGAACACGAACAGGTGTTCATGGTGGATGAAATCATTTCTCATCCTGACTTTACAGATCACACAGGAGGCAATGATAATGACATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005086:ENSGALT00000044471:6
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(20.1=76.6)
A:
NA
C2:
PF0008921=Trypsin=FE(21.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCGTACATGTGGCCAAAGAA
R:
TGTCATTATCATTGCCTCCTGTGT
Band lengths:
342-947
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]