RnoINT0060323 @ rn6
Intron Retention
Gene
ENSRNOG00000009342 | Fcnb
Description
ficolin B [Source:RGD Symbol;Acc:621222]
Coordinates
chr3:6620907-6621219:-
Coord C1 exon
chr3:6621187-6621219
Coord A exon
chr3:6621035-6621186
Coord C2 exon
chr3:6620907-6621034
Length
152 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTTCTGCTTCTATCCACAGGAC
3' ss Score
12.82
Exon sequences
Seq C1 exon
GAGACACCGGGCCCTCCCAGTCATGTGCTACAG
Seq A exon
GTGAGCACATTGCCTTCCCTGTCCCCATACAGATGTTCTCTGTCCCTGCCTCCATTTCTAGGCCCCTGCTGTGTGAATTTGTGTTTGTTCCTCACCTTCTCTGAGCATATCTGGGCTCCGGTCCTACCTTCATTTTCTGCTTCTATCCACAG
Seq C2 exon
GACCTCGGACCTGCAAGGAGTTGCTCACCCGGGGCTACTTTCTCACTGGCTGGTATACCATCTACCTGCCAGACTGCAGGCCCCTGACCGTGCTGTGTGATATGGACACAGATGGTGGAGGCTGGACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009342:ENSRNOT00000012494:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.750 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(11.5=58.3),PF0014713=Fibrinogen_C=PU(0.1=0.0)
A:
NA
C2:
PF0014713=Fibrinogen_C=PU(19.7=97.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTCCCAGTCATGTGCTACA
R:
TCCAGCCTCCACCATCTGTG
Band lengths:
148-300
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]