DreINT0116061 @ danRer10
Intron Retention
Gene
ENSDARG00000023111 | plg
Description
plasminogen [Source:ZFIN;Acc:ZDB-GENE-030131-1411]
Coordinates
chr20:42801561-42801877:-
Coord C1 exon
chr20:42801757-42801877
Coord A exon
chr20:42801680-42801756
Coord C2 exon
chr20:42801561-42801679
Length
77 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGA
5' ss Score
6.21
3' ss Seq
CTGTGGTCTGTCTTTTGTAGTCT
3' ss Score
9.2
Exon sequences
Seq C1 exon
AGGAATGTATGCAGTGCAGTGGAGAAAACTACAGAGGGAAAATCTCCACCACTGTGAGTGGATTCACCTGCCAACGCTGGGACTCTCAGCAACCCCAAAACCACGGTTACCTTCCTTCAGC
Seq A exon
GTAAGACCCTATTATTTAAAGCCCAATTGGCATATGGCCTATTTTGTGCATTTTTAACTGTGGTCTGTCTTTTGTAG
Seq C2 exon
TCTTCCTGATAAGTACTTGGAAGAGAACTACTGCAGGAACCCCGATGGAGAGCCCAGGCCCTGGTGCTTCACCACCAGTCCATCCAAACGCTGGGAAGCTTGTGCCATCCCTCGATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000023111:ENSDART00000045816:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.122 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(48.7=92.7)
A:
NA
C2:
PF0005113=Kringle=PD(50.0=95.1)
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:
AGGAATGTATGCAGTGCAGTGG
R:
ATCGGGGTTCCTGCAGTAGTT
Band lengths:
167-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]