RnoINT0060322 @ rn6
Intron Retention
Gene
ENSRNOG00000009342 | Fcnb
Description
ficolin B [Source:RGD Symbol;Acc:621222]
Coordinates
chr3:6621187-6621853:-
Coord C1 exon
chr3:6621818-6621853
Coord A exon
chr3:6621220-6621817
Coord C2 exon
chr3:6621187-6621219
Length
598 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGTCTTCTCTCCCCATGCAGGAG
3' ss Score
11.86
Exon sequences
Seq C1 exon
GAGACCGAGGAGAGAAGGGAGTGCGTGGAGAAAAAG
Seq A exon
GTGAGCCTCTGTACTGTGTCTTGGGAGGTGTGCAAAGCTCTGTGTAGAGAAATGTCTGTCATACCTAGATATGCCTAGGGAAAGGGGCCTTAGACTGAGGTCCTAGTGTCTGGGCAGTGAGTAGAGTAGGTGTCAGGAGCCAGGATATTCAAATCCTGAGGGCTCCTATTCTAGAACCTGTTAGTGGTCTGTCTGAGTGATGAGCAAAACTGATTTGAATTCTTTTCTAATTGGTGCTTATTTTTTTTTAAAAAAAATTATGAAGCTTTAAGACACAATCTCATGTTTTCTTTATAATCAAGGGAGAGCTGCCTGGGTTTGAATGCCAAGGACATCCCTCACCCACAAGGCCTCCTGGGTAGACAGTCTGGCAGAGCATAGTCTAAGTGCACTTGGAGCAAAGCATGCTGGGAGCCAGGAGGGGCTACCACAGCTGCAGAGGAAAAGCCAGGTAGCTGGAATGTGTACTCCAAGAGGAGGAGGGCCTAGGCGAGTCCTGGAATTATTCAGCTCATGTATTTAAGGGGCTATAGGGGCCAGTAGGGATGTAGCTGATGACCTCACATCTGTGACCAGAGTGTCTTCTCTCCCCATGCAG
Seq C2 exon
GAGACACCGGGCCCTCCCAGTCATGTGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009342:ENSRNOT00000012494:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.750
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.7=100)
A:
NA
C2:
PF0139113=Collagen=PD(11.5=58.3),PF0014713=Fibrinogen_C=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]