RnoINT0060324 @ rn6
Intron Retention
Gene
ENSRNOG00000009342 | Fcnb
Description
ficolin B [Source:RGD Symbol;Acc:621222]
Coordinates
chr3:6620392-6621034:-
Coord C1 exon
chr3:6620907-6621034
Coord A exon
chr3:6620522-6620906
Coord C2 exon
chr3:6620392-6620521
Length
385 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
TGTATACCTCACCGTCCCAGGTC
3' ss Score
6.48
Exon sequences
Seq C1 exon
GACCTCGGACCTGCAAGGAGTTGCTCACCCGGGGCTACTTTCTCACTGGCTGGTATACCATCTACCTGCCAGACTGCAGGCCCCTGACCGTGCTGTGTGATATGGACACAGATGGTGGAGGCTGGACC
Seq A exon
GTGAGTGTTCGGTTAGCCCCAGGTCACTGAACTCTCAGAACCCAAGTTCCATGGCTAATAGGAAATGAGCTGTGTAGGGTTCTGTCCCTTTGTACCTCAGAGGGAGCCCTTCACTCTCTGAAGACAGAGAATCAGAAATGCTGGCAGGTGACCTGTGCAAGACAGCACACATGGAAGGGGAGGCCTGTGTGAAGCCAGCACACTTTTCTTCCTCCTGTGTGGCTTGGGACGTGTGACTTACTCTTGTAGCTGCCGCTTGGTGTATGGGGACTGCCATGGCCTATCTACGGCACTAGGTTCCCAGTGTTCTGAGGATTATGGATTCCCGATCTGCTTTGAGGCTGGGTTCCCTGTGTTGACGTCTGTGTATACCTCACCGTCCCAG
Seq C2 exon
GTCTTTCAGAGAAGGATCGACGGCACGGTGGACTTCTTTCGGGACTGGACCTCATACAAACAAGGCTTCGGCAGCCAGCTGGGGGAGTTCTGGCTGGGGAACGATAACATCCATGCTTTAACCACCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009342:ENSRNOT00000012494:6
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:
PF0014713=Fibrinogen_C=PU(19.7=97.7)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(20.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGGACCTGCAAGGAGTTG
R:
CCTGGGTGGTTAAAGCATGGA
Band lengths:
255-640
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]