RnoINT0057513 @ rn6
Intron Retention
Gene
ENSRNOG00000016325 | F2
Description
coagulation factor II [Source:RGD Symbol;Acc:61996]
Coordinates
chr3:80529428-80529875:-
Coord C1 exon
chr3:80529805-80529875
Coord A exon
chr3:80529723-80529804
Coord C2 exon
chr3:80529428-80529722
Length
82 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
ATCCCACTTTTCTTCCTCAGAGC
3' ss Score
10.29
Exon sequences
Seq C1 exon
GCTTCAAGGTGAATGACACCAAGCGAGGAGATGCTTGTGAAGGTGACAGTGGGGGACCTTTTGTCATGAAG
Seq A exon
GTAAGCTTCTCTAAAGGCCAGGGGTTGGTGGGTAATACAGCACCTGGACCTGACTATTGGAAATCCCACTTTTCTTCCTCAG
Seq C2 exon
AGCCCCTACAACCACCGCTGGTACCAAATGGGTATTGTCTCCTGGGGTGAAGGCTGTGACCGGAATGGGAAATATGGCTTCTACACGCACGTGTTCCGTCTGAAAAGGTGGATGCAGAAAGTCATTGATCAGCATAGATAGGTTTGTGGGTGGGTGAGAGACCCACAGTATGGGATCCTCATTGCAAAATCACAGAAACCAGTCAAAATATTTTTGTGGTTTGTTTCTGTTCTCAATAAAAGTGATTGTCAGTAAGTCTTGGTGTGCCCAGTGCTGTTGACGGACAACTCTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016325:ENSRNOT00000022233:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(9.2=100)
A:
NA
C2:
PF0008921=Trypsin=PD(14.8=78.7)
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:
CAAGCGAGGAGATGCTTGTGA
R:
TGCATCCACCTTTTCAGACGG
Band lengths:
168-250
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]