RnoINT0060314 @ rn6
Intron Retention
Gene
ENSRNOG00000017063 | Fcna
Description
ficolin A [Source:RGD Symbol;Acc:621221]
Coordinates
chr3:2851624-2852056:-
Coord C1 exon
chr3:2852021-2852056
Coord A exon
chr3:2851660-2852020
Coord C2 exon
chr3:2851624-2851659
Length
361 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
ACATTCAAGTCTCTGCCCAGGTC
3' ss Score
3.57
Exon sequences
Seq C1 exon
GGGAGAAAGGAGAGAGAGGAACTGCATCACCACTGG
Seq A exon
GTGAGTACACCCTAAAGCCTCTTCTAAACTTTCCAGCATCTCTCTCCCTCTGGCTGTTAGTAAAGGAGAGTGAGCTTTGGGGGCTGAGTAGCATGGTCAGTAGTCTGTGGGCCCAGCTAGCCTCCCAGCCAGCACCCTGACCTATCCCAACTCTGGATACAGTCACAGACCGGACAAAGCATATGCAGCAGCCCAACACACAAAGGAGCCTGAGCCAGCAGGGGCCAACCCAGATGGGTGTGCTGGGCTCCCTAGCAGGGGGGTACAGCACTGACTATGTCATGTGTAATATGGAGTCTAGGGGAGTTATATGTGCTGGGAAGGGACCAAGGAAGAAAATAACATTCAAGTCTCTGCCCAG
Seq C2 exon
GTCAGAAGGAGCTGGGAGACGCACTGTGCCGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017063:ENSRNOT00000023022:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.923 A=NA C2=0.231
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(19.7=100)
A:
NA
C2:
PF0139113=Collagen=PD(1.6=7.7),PF0014713=Fibrinogen_C=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
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]