DreINT0115270 @ danRer10
Intron Retention
Gene
ENSDARG00000075265 | plaua
Description
plasminogen activator, urokinase a [Source:ZFIN;Acc:ZDB-GENE-090313-278]
Coordinates
chr13:25169881-25171744:-
Coord C1 exon
chr13:25171567-25171744
Coord A exon
chr13:25170033-25171566
Coord C2 exon
chr13:25169881-25170032
Length
1534 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
TGTTTCTTTATTTTGAACAGTAA
3' ss Score
6.49
Exon sequences
Seq C1 exon
AATTAACGTGTGGGGAGCGCCGCTTGGACCGACAGACAAAGATAATAGGAGGATTAAGGTCAACTGTTGAGTCACAGCCTTGGATGGCAGCTATCTTTAAAGGAGATGGGTTCATTTGTGGAGGAACCCTCATCACTCCATGCTGGGTCCTCACTGCAGCCCACTGCTTCCCTACTGG
Seq A exon
GTATGTCAACTTGCCATTTACTGAAATGTTTTACCTTATTTTACATTCTGTGTAAGTCAGGTTTATTTTGCAAGAATACACCAGCTGACAGTACATTATCCTGTATACTACTCCTGAAATATTATCTCAAAATATAATAATTTTAAAAGGGATATTACACCCAAAAATAAAAATTGAAGCAAGTGATTTCATGCCTCTATGAGGTTCTTTCCTTTATTAAACATAAAATAATATTTTAAAGAAAGCTGAAATCCTGTAACTAGTGACTTCCATAGATGGAAAAACAAATACTATGGAGGTCAATGGTTATAAGTCATATATCAAAATCTTATTTTGAGTTTAAGAGAAGAAAGAAAGTCAAACAGCTTTGAAGCAAGTACATGGTGAATCAACACTGACACAATTTTTTGGTGAACTATTCCTTTATGTAGTCCACCTAGCATAAATACCTATATAATTCTCTAATCATAATTATCAATAACTGAGAAGTAAAATGATGCCAACTAATAGTGGACAGTAGTAGTACTAATAGTGGACATTAAAGTAGCAGCAATACTGAAAGAAATCAATAAATCAAGCTTTGTTAAAATTGAACTTGGAATACACACAAAAGCAAATATCCAAACACACAAACACAAAATGATGGACTGAGTGAGCTTTTGAGGGAGTTTTTTTAAAGCACTAAGTCTATCCTAATTTGATTGAATACAAATTAATGGTAAATAATAGATTTTTTAATTTTAATAAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAATATATATATATATAATATATATATATATATATATGTTTCCATAATTCAGTTTATTTAGTAAAAAATCTACATTGAGTTTTATATCCGCTTAAGTGTGACGTTAAGCAAAGCGGCTTCCAAGTCCATATCAAACTGTATGGTGAAACTTAACGAATGGTAATAATAAATGTTTACACAGTGATGTAAGACTTTAGAAAATCATGATTGCAATATATACATATAAAACCATTCCTAATATCTGATGGCCAGAAAGTGATTCATTTTTATAAATTGTTAAAATATGGGTGTACTGTATGTGATGCAGAGACTGTTGTGTACACCACAATTGTATATAAAATTCACTTTAATGTTTGATATGACTAAAGATTGGTCAAATATTTTATCAAATCAAATGATTAGCAGCTTAGTCCTAGAAATAGTATTCCTTGCGTCATGACTTCATGGGTCATGGGCCTCAAAATGACTTTGAGGTCATTTTGCCAACACTTTGGAAACCAAAACAGGAGGGAGGAATCTTGCATGTAGATTGCAATGAGAGCTTAGGTAGATGACCCTAATTCTTCAGTTTGGGAATAGACCTTAAATCAAGAAGTTGGGTGAATTAGCAAATTTCAGACTACTGCATGCCATGGTCAAATTCTACTGTATTCCATACTGTATTCCAGAAAGGGATGGTGTTATAAAATGCTTCATGTAGTTATGTATAGTAAAGTGCTATAAAATTACTTAATTTGTTTGTTTCTTTATTTTGAACAG
Seq C2 exon
TAAAAGAACACAAATAAATAGATACTCTGTCGTCTTGGGAAAGAATGCCATCAATGAAACCGACCCAGTCAAAGAGCAGAAATTCACAGTGAGCAGACTTGTCATCCACGAGGACTTTGACTACTCAACTGAAAACTACACTCACGACATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075265:ENSDART00000133153:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.025 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(18.8=75.0)
A:
NA
C2:
PF0008921=Trypsin=FE(21.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTAACGTGTGGGGAGCGC
R:
TGTCGTGAGTGTAGTTTTCAGTTGA
Band lengths:
327-1861
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]