RnoINT0060316 @ rn6
Intron Retention
Gene
ENSRNOG00000017063 | Fcna
Description
ficolin A [Source:RGD Symbol;Acc:621221]
Coordinates
chr3:2850778-2851474:-
Coord C1 exon
chr3:2851347-2851474
Coord A exon
chr3:2850908-2851346
Coord C2 exon
chr3:2850778-2850907
Length
439 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
CTGCCCTGCCCACCCCACAGGTT
3' ss Score
9.7
Exon sequences
Seq C1 exon
GGCCCCGGAGCTGCAAAGACTTGCTGACACGGGGGATCTTCCTGACTGGCTGGTACACCATCTATCTTCCTGACTGCCGGCCACTGACTGTGCTCTGTGACATGGATGTGGATGGTGGGGGCTGGACC
Seq A exon
GTGAGTAAGGAGGCTCAGTGTGGGGCATAAGAAGTTTGCACACAGCAGCTACACTCTGGAGAGCCAAAGGCAGAGAGGCGGCAGAGTAGCCAGAAAAAAAAGAAAAAAGAAAAATGTGGTGCCTTGCCCTCCAAGGACACCCTAAGCACTGACAGGCCAGATCTACAGCTCTATGAAGTGAGTTAAGTGGGCGACAGGACCCCAGTCACAGCAGATGCATCGAAACATGTCAGCCCTGGGCCGCTAGCATCAGCCAATTGCCCCTCAATCCCCTGTATCCCCCGCCCCTGAAACCTCATTCTCACTCAGTTCTTTATAGGAGTGGGAAAAACAAAACAAACCAACAAAAACCAAACAAAAACAACCAGACCTGGACGTACCCCTCGGGTTCCCGCTCTTAGGATCGTGACACCCACAGACTGCCCTGCCCACCCCACAG
Seq C2 exon
GTTTTTCAACGACGAGTGGATGGGTCCATCAACTTCTACCGAGACTGGGATTCCTATAAAAGAGGCTTTGGCAACCTGGGCACAGAGTTCTGGTTGGGTAATGACTACCTTCACCTGCTCACAGCCAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017063:ENSRNOT00000023022:7
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=PU(19.6=97.7)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(20.1=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:
CCCGGAGCTGCAAAGACTTG
R:
GCTGTGAGCAGGTGAAGGTAG
Band lengths:
250-689
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]