RnoINT0060312 @ rn6
Intron Retention
Gene
ENSRNOG00000017063 | Fcna
Description
ficolin A [Source:RGD Symbol;Acc:621221]
Coordinates
chr3:2852350-2852609:-
Coord C1 exon
chr3:2852556-2852609
Coord A exon
chr3:2852386-2852555
Coord C2 exon
chr3:2852350-2852385
Length
170 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
AACGCCCCTTCTATCTACAGGAG
3' ss Score
10.22
Exon sequences
Seq C1 exon
GGGAACGGGGCTTACAGGGCAGCCCAGGGAAGATGGGACCCGCCGGCAGCAAAG
Seq A exon
GTAAGAGGGAATTCTCCCATGGGTTTACCTGCTTGAGGTCCAGACACACACACACACACACACACACACACACACACACACACACACACACGTTAAGAATTGTCTAACAAGGGAGCCCAATTGCTCCCTTGTGGAGGCCGGCACTATGAGAACGCCCCTTCTATCTACAG
Seq C2 exon
GAGAGCCAGGAACCATGGGGCCCCCAGGAGTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017063:ENSRNOT00000023022:3
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=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(29.5=100)
A:
NA
C2:
PF0139113=Collagen=FE(19.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGAACGGGGCTTACAGGG
R:
CTTTGACTCCTGGGGGCCC
Band lengths:
90-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]