RnoINT0060317 @ rn6
Intron Retention
Gene
ENSRNOG00000017063 | Fcna
Description
ficolin A [Source:RGD Symbol;Acc:621221]
Coordinates
chr3:2850557-2850907:-
Coord C1 exon
chr3:2850778-2850907
Coord A exon
chr3:2850692-2850777
Coord C2 exon
chr3:2850557-2850691
Length
86 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGG
5' ss Score
7.61
3' ss Seq
CCTTCTACCCATGCTGCTAGGGA
3' ss Score
5.75
Exon sequences
Seq C1 exon
GTTTTTCAACGACGAGTGGATGGGTCCATCAACTTCTACCGAGACTGGGATTCCTATAAAAGAGGCTTTGGCAACCTGGGCACAGAGTTCTGGTTGGGTAATGACTACCTTCACCTGCTCACAGCCAATG
Seq A exon
GTGAGGAAGCAGCCTCTTGGCCATCACCTGCCTTCCATTACTCTGCCTGGCCTGAGCCTTTTCCTTCCTTCTACCCATGCTGCTAG
Seq C2 exon
GGAACCAAGAGCTCCGGGTTGACTTAAGAGAGTTCCAAGGTCAAACCTCCTTTGCCAAATACAGCTCATTCCAGGTATCTGGAGAACAGGAGAAATACAAGCTGACCTTGGGGCAGTTTCTGGAGGGCACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017063:ENSRNOT00000023022:8
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=FE(20.1=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(21.0=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:
CTTTGGCAACCTGGGCACAG
R:
GCCCCAAGGTCAGCTTGTATT
Band lengths:
179-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]