RnoINT0112600 @ rn6
Intron Retention
Gene
ENSRNOG00000019018 | Plat
Description
plasminogen activator, tissue type [Source:RGD Symbol;Acc:3342]
Coordinates
chr16:74098260-74101239:-
Coord C1 exon
chr16:74101076-74101239
Coord A exon
chr16:74099159-74101075
Coord C2 exon
chr16:74098260-74099158
Length
1917 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TGATCTCTGCTCTTCCACAGGGT
3' ss Score
10.04
Exon sequences
Seq C1 exon
CCTCTCCTTTCTTCTCTGACCGGCTGAAGGAGGCTCACGTCAGACTGTATCCGTCCAGCCGCTGTACCTCACAGCATCTGTTTAACAAAACCATCACGAGCAACATGCTGTGTGCAGGAGACACCCGAACTGGGGGCAACCAAGACGTCCATGACGCGTGCCAG
Seq A exon
GTAAGCATGGTGCCCCGGCACTCTGGGTCCTCCTCCGTGCCCTTAACAGGGTGGGGGAGCGCACAGGGGAGGGTTTGATGCTGGGGTTCAAAACTGGAGCTTCAGAGAATAAAACTATAAAGACCAAAACACCCCAAATCGAAGAGATCTGAACTGCAGGAAGTTTTCCCAGTCTGTGGACAGGAAGCTCCACCTAGCACAGGATTTCCTGTGAGCCCTATTGAAGTGATAGGTAAAGGGACATCAGTAACCCTTGACTTGTGAAGGTGTTGGGCTGTGTGAGCCTACTTCGTAGGATGAGGAAAGGCACCCCTACTCCCACCCCAGGACTCAAGAGATGGATAGGATGTGGGGAAAAGTCCAGTTTCAGCCTGGGAAGCAGGGCCTTTTAGGTTCTCGGTGCTGAGTCCACTGGACTTGGTACTTACATTTCCCCCTTAATAAGGTGCTGGGGTGCAAGCACAGAGTAACCACTGACACTGAGACCCTGATAGCAACCACCGGATCAGGAGACTTGAACCAGAGGTCACTGAAGCCATACGACTTACAAGTAGCAATATATATTCCTGTATATATATATTCCTGCATATATATCCCTGTATATATACATATATTCCTGTATATATACATACAACTTACAAGTAGTAGCAATATATATATATATATATCCCTGTATATATATCCCTGTATATATATTCCTGCATATATATTCCTGTATATATAAATATATTCCTGTATATGGAATATATATTCCTGGCTGGCATGGAACTCTGTGTAGAAGAGGTTGGCCTCAAACTCACAGAGATCTACCTGTCTCACCCTCCTAAATGTTGTAGTTAAAGGTATGTACCACCTGCTCAAAGCAGTTTTTGTTTTTGTTTTTCTGGTGCTAACAGTTATTTTAAGTCTGTTTTTAGTGGATTTTTATTTATCTATTGTTTTCTTTCTTTGTTTGTTTCGTTTTGTTTTGTTTTGTTTTGTTTTGTTGTTGTTGGTTTTTTTTTTTTTTTTTTTTTGAGACCGGGTCTCACTCACTGTATGGTCCTCAATAGCTTGGAACTCTATATGTAGACCAGGTTGGCCTTGAACTCAAAGAAATCCACCCCCCTCCCTTTTGAGCACTGTGATTAAATGCATGTGTCACCTTGCCAGATTCTTTTTTTTTATCTTTATTAACTTGAGTATTTCTTATTTACATTTTGATTGTTATTCCCCTTCCCGGTTTCCAGGCCAACATCCCCCTAACCTCTTCCCCTCCCCTTCTATATGGGCTTCCTCCCCATCCTCCCCCCATTACCACCCTCCCCCCAACAATCTCGTTCACTGGGGGTTCAGTCTTGGCAGGACCCAGGGCTTCCCCTTCCACTGGTGATCTTACTAGGATATTCATTGCTACCTATGAGGTCAGAGTCCAGGGTCAGTCCATGTATAGTCTTTAGGTAGTGGCTTAGTCCCTGGAAGCTCTGGTTGGTTGGCATTGTTGTACATATGGGGTCTCGAGCCCCTTCAAGCTCTTCCAGTCCTTTCTCTGATTCCTTCAACGGGGGTCCCATTCTCAGTTCAGTGGATTGCTGCTGGCATTCACCTATGTATTTGCTGTATTCTGGGTGTGTCTCTCAGGAGAGATCTACATCCGGTTCCTGTCGGCCTGCACTTCTTTGCTTCATCCATCTTATCTAGTTTGGTGGCTGTATATGTAGGGGCCACATGTGGACCTTGCCAGATTCTTAAATGCTGTTTTGTCAGGATGGATTAATATACAGCCTAATCTATACCATCAAAATAACTGAGCCTCAAGTCTCCCTCTCTGATCCAAGTACTTTGAGGGCTACAATCATCAAAGTACAAATAACAATACAAACCTTCTTCCAAACATTCTGCCCTGCGTACAAGCCGCTGATCTCTGCTCTTCCACAG
Seq C2 exon
GGTGACTCAGGAGGCCCTCTGGTGTGCATGATCGATAAGCGGATGACTTTACTGGGCATCATCAGCTGGGGCCTCGGCTGTGGGCAGAAGGACGTGCCAGGGATATACACAAAGGTCACTAATTACCTGAACTGGATCCAAGACAACATGAAGCAATGACAAAGAAAGCCCAGCTCCTTAAACCCAGAGGACCTGCCTTCCTCTTCCTCTTCCACAGAAGATACGCCTGAAAGGCCAAGCGTTCTTCGCAGGCTCGTCCTCCTGAGCTGCCGCTCAGCAGAGGGAGTGACAGTCTTTAGGCACAGACAGAGTTTACTTTGTGACAGGTACTTCACAAACTTGTACGTTTTAAGGGTGAAGGTCTGACTTTAGAATCAGTTCTGTCAGATGAGATGACAGGGAAATGCCAACCTTCCTATAACTCTAAGATTTTAAAAAGAGAAGTAGACCAAAGTCCACCCTTCCTGGACCACTATTTTGTACACTGAACCACAAGATCGTGTCTCAACAGTGAAATACAACTTGATCTTTCAGGAGTAAAAGTCTGCACTGAGGACAAGAATGTGTTTTTATAGTTACACAGGGGCCCAGCATGGCCTCCAAGAGAAGGAAGGGGTTAGCTGATCAGACCACAGCCCCCTAAAACCCTTGAAATCAAATATTCCCCATCCTCCCACAATCCTCAACTCTTGGGGCATATCCCTTTGTACACAGTGTAGATGTCTTTTTCTTTATAAACTTTCCAGATGGCTGGGAGAACTGTATGATTTTAATATTCGATGAAATGACACTAGTATATTTATATTTGAATCTATTTAGTTTTTACTGTGTTACTAGAACTCTGTATTATGCTGTACTGAAATAATAAATTCCAAGGTATTTTTCACACTTTTAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019018:ENSRNOT00000025763:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.127 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(22.0=100)
A:
NA
C2:
PF0008921=Trypsin=PD(18.4=84.9)
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:
GGAGGCTCACGTCAGACTGTA
R:
AGAGGAAGAGGAAGGCAGGTC
Band lengths:
346-2263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]