RnoINT0057519 @ rn6
Intron Retention
Gene
ENSRNOG00000016325 | F2
Description
coagulation factor II [Source:RGD Symbol;Acc:61996]
Coordinates
chr3:80536117-80536789:-
Coord C1 exon
chr3:80536475-80536789
Coord A exon
chr3:80536231-80536474
Coord C2 exon
chr3:80536117-80536230
Length
244 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
CCACTGCCCGGTCTCTACAGATG
3' ss Score
9.23
Exon sequences
Seq C1 exon
GTCAGGAGGGCCGTACCACTGTGAAAATGACTCCTCGCTCAAGAGGTTCCAAGGAGAATCTGTCGCCTCCATTGGGAGAGTGCCTCCTCGAGCGTGGCCGGCTGTACCAGGGGAACTTAGCTGTGACAACACTTGGGTCCCCCTGCCTGGCCTGGGACAGTTTGCCAACCAAGACCCTGAGCAAGTACCAGAACTTCGACCCTGAGGTGAAACTCGTGCAAAACTTCTGCCGCAATCCAGACCGGGATGAGGAGGGCGCGTGGTGCTTTGTTGCGCAGCAGCCTGGTTTTGAATACTGCAGCCTCAACTACTGTG
Seq A exon
GTGAGCAGCTCATAGAGCATGGCAGGGCAAGGACGGAAGACAGGTGGGTTCATTACAGCCTGACAGAAACCTGGCTAGGGGTAGGTCCTATTCTTGTTTCATAGATGAGTAAACGGAGGCCCTGAGCAATTGTTGGCTGGTCACCGAGGTGTGCCTAGGCTCTTAACCTCGGAGTCAAACGCCTTCCAATGCCCCTGGGGTCTTGGGAAGGTCTGAGGTCCCAGCCACTGCCCGGTCTCTACAG
Seq C2 exon
ATGAAGCGGTGGGAGAGGAGAACCATGACGGGGACGAGTCCATCGCAGGACGCACCACCGACGCGGAGTTCCACACCTTCTTCGATGAGAGGACTTTCGGCCTTGGGGAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016325:ENSRNOT00000022233:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.123 A=NA C2=0.179
Domain overlap (PFAM):
C1:
PF0005113=Kringle=WD(100=73.6)
A:
NA
C2:
PF093965=Thrombin_light=PU(40.8=51.3)
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:
ACCAGGGGAACTTAGCTGTGA
R:
CGAAGAAGGTGTGGAACTCCG
Band lengths:
294-538
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]