RnoINT0057511 @ rn6
Intron Retention
Gene
ENSRNOG00000016325 | F2
Description
coagulation factor II [Source:RGD Symbol;Acc:61996]
Coordinates
chr3:80534211-80534710:-
Coord C1 exon
chr3:80534537-80534710
Coord A exon
chr3:80534393-80534536
Coord C2 exon
chr3:80534211-80534392
Length
144 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
GTCCCTCTCTTTCCCTAAAGTTT
3' ss Score
8.45
Exon sequences
Seq C1 exon
ATATGAGCGGAATGTTGAAAAGATCTCCATGCTGGAAAAGATCTACATCCACCCCAGATATAACTGGCGGGAAAACCTAGACCGTGACATTGCTCTGCTCAAGCTAAAGAAGCCAGTGCCCTTCAGTGACTACATTCACCCCGTGTGCTTGCCAGACAAGCAGACAGTAACCAG
Seq A exon
GTCAGCACTAGGGCCTGGCCCATATTTGCAGGTGTCAGTTCCATGGTGTGAAGGCAAAAGTGCTTCCCTATGCTACTTTCTAAGCTGTTGGTGCCAGAAGGCTGTCAGGGACCATTCTCATCAGGTCCCTCTCTTTCCCTAAAG
Seq C2 exon
TTTGCTCCAGGCTGGTTATAAAGGGCGGGTGACAGGCTGGGGCAACCTTCGGGAGACGTGGACAACTAACATCAACGAGATACAGCCCAGCGTCCTGCAGGTGGTGAACCTGCCCATTGTAGAGCGACCAGTGTGCAAGGCCTCTACCCGGATACGCATTACTGACAACATGTTCTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016325:ENSRNOT00000022233:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(23.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(24.4=100)
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:
CGGGAAAACCTAGACCGTGAC
R:
CTTGCACACTGGTCGCTCTAC
Band lengths:
246-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]