RnoINT0057509 @ rn6
Intron Retention
Gene
ENSRNOG00000016325 | F2
Description
coagulation factor II [Source:RGD Symbol;Acc:61996]
Coordinates
chr3:80542376-80543031:-
Coord C1 exon
chr3:80542900-80543031
Coord A exon
chr3:80542540-80542899
Coord C2 exon
chr3:80542376-80542539
Length
360 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
GCCCCTGCCCCCTGCTGCAGTGT
3' ss Score
7.67
Exon sequences
Seq C1 exon
ATTAACCCAGAGAGAGTCAGGACAATCCCTCAGATCCCAGGAGCTGACACACTATGTCGCACGTCCGCGGCCTGGGCCTACCTGGCTGCCTGGCTCTGGCTGCCCTGGCTAGCCTGGTACACAGTCAGCATG
Seq A exon
GTAAGGGGCACTTGGAGGCCTCGGGCAGAATAGAGGATGTGGGAAAGGCCTGAGGGCTGGGGTTTCCCTGCCTAAGATCAGAGAACACAGGGACAGCCCCAGGTGGACCTCAGATCAGAGTGTCCAGCTTAGAGATGTCGTCGTGTGTGGTGCAGGGAGAAAGGCATCGCTTCTGGGGAGTGGGCTAGGGCAACCAATGAAAGGCAGACGACTCACAGACTGTTCAGTGGCCTTCTGGGTACTTTCCTCATCCCCTCTGTCCCCTCTTGGAAGCTAGCAGAGCTGCCAGCTTCCTACCCCTAATGGTTAAGATAGCCAGGCTTCCAGAGGCGATTCCCATGCCCCTGCCCCCTGCTGCAG
Seq C2 exon
TGTTCCTGGCCCCTCAGCAAGCACTGTCGCTGCTCCAGCGGGTCCGCAGAGCCAACAGCGGCTTCCTGGAGGAGCTCCGAAAGGGCAACCTGGAGCGTGAGTGCGTGGAAGAGCAGTGCAGCTATGAGGAGGCTTTTGAGGCCCTGGAGTCTCCCCAAGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016325:ENSRNOT00000022233:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0059415=Gla=PU(76.2=58.2)
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:
ACCCAGAGAGAGTCAGGACAA
R:
CTTGGGGAGACTCCAGGGC
Band lengths:
287-647
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]