RnoINT0057517 @ rn6
Intron Retention
Gene
ENSRNOG00000016325 | F2
Description
coagulation factor II [Source:RGD Symbol;Acc:61996]
Coordinates
chr3:80539249-80539570:-
Coord C1 exon
chr3:80539465-80539570
Coord A exon
chr3:80539386-80539464
Coord C2 exon
chr3:80539249-80539385
Length
79 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TGAGCATTCTTCTCTTCCAGCAT
3' ss Score
8.19
Exon sequences
Seq C1 exon
GTCGCTGTGCTATGGATCTGGGTCTGAACTACCATGGGAATGTGAGTGTCACCCATACCGGCATCGAGTGTCAGCTGTGGCGAAGCCGCTACCCACACAGGCCTGA
Seq A exon
GTGAGTGCTGGGCAGGCCAGGAGGGGAAGCAAGTGCATACTCGCAAGGCACAGGGTCCCTGAGCATTCTTCTCTTCCAG
Seq C2 exon
CATCAACTCCACCACCCATCCTGGGGCTGACCTGAAGGAGAACTTCTGCCGAAATCCAGACAGCAGCACCTCAGGGCCCTGGTGCTACACCACAGACCCTACTGTGCGCAGAGAGGAATGCAGTATCCCTGTCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016325:ENSRNOT00000022233:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.319
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(41.8=91.7)
A:
NA
C2:
PF0005113=Kringle=PD(57.0=95.7)
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:
GTCGCTGTGCTATGGATCTGG
R:
GCTGTCTGGATTTCGGCAGAA
Band lengths:
170-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]