DreINT0116053 @ danRer10
Intron Retention
Gene
ENSDARG00000023111 | plg
Description
plasminogen [Source:ZFIN;Acc:ZDB-GENE-030131-1411]
Coordinates
chr20:42794709-42795795:-
Coord C1 exon
chr20:42795655-42795795
Coord A exon
chr20:42794816-42795654
Coord C2 exon
chr20:42794709-42794815
Length
839 bp
Sequences
Splice sites
5' ss Seq
CAGGTTACA
5' ss Score
-1.25
3' ss Seq
ATGGTTTTGTCTGATTTCAGGCC
3' ss Score
8
Exon sequences
Seq C1 exon
ATCTGATAGTCCATCTGCATACAAGATCATGCTAGGAATCCACACAGAGCGAGCAACTGAATCATCAAAACAGGAGCGAGATGTTACAAAGATTATTAAGGGACCAGCTGGAACTGACATTGCTCTTCTCAAGTTGGACAG
Seq A exon
GTTACAGTCTTTTGTTGTAAACCGATATCTGTTGTAGTAAAAAAAACAAAACAAAAAAAAAACACACCAGTAAAGTGTGTGATGTTTTAGTCATTTACTGTAAATAGTAGCCATGCTAAATATGTAGACACACATATGAGTAAATAATGCATCTCATCTCTTAAAGGAACACTTCACTTATGGATGGATGGATGAATGGATAGAACGATAGATAGATAGATAGAACGATGGACAGAACAATGGATAGATAGAACGATGGATAGAACAATGGACAGACAGACAGACAGACAGGCAGGCAGGCAGGCAGGCAGGCAGGCAGGCAGACAGACAGACAGACAGGCAGGCATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGGCAGGCAGGCAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGAACGATAGACGGATGGATGGATGGATGGATGGATGGATGGATGGATGGATAGGCAGGCAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGACAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAGATAACAACCTTATTTCTAATAAACGTGATATCAAGACAGCTAATGGTTTTGTCTGATTTCAG
Seq C2 exon
GCCTGCATTAATAAATGATAAGGTGTCACCTGTATGTCTACCAGAAAAAGACTACATTGTACCCAGCAATACTGAATGCTATGTAACAGGATGGGGGGAGACACAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023111:ENSDART00000045816:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.250 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(21.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(16.1=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:
ATCTGATAGTCCATCTGCATACAAGA
R:
CCCCCATCCTGTTACATAGCA
Band lengths:
238-1077
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]