HsaINT0063314 @ hg19
Intron Retention
Gene
ENSG00000085265 | FCN1
Description
ficolin (collagen/fibrinogen domain containing) 1 [Source:HGNC Symbol;Acc:3623]
Coordinates
chr9:137804332-137804989:-
Coord C1 exon
chr9:137804862-137804989
Coord A exon
chr9:137804462-137804861
Coord C2 exon
chr9:137804332-137804461
Length
400 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
GTATCCTGGCTTCTTCACAGGTT
3' ss Score
7.9
Exon sequences
Seq C1 exon
GCCCACGCAACTGCAAGGACCTGCTAGACCGGGGGTATTTCCTGAGCGGCTGGCACACCATCTACCTGCCCGACTGCCGGCCCCTGACTGTGCTCTGTGACATGGACACGGACGGAGGGGGCTGGACC
Seq A exon
GTGAGTGTGGGGCTGGGCAGAGGCGGTCAGCCTGGGAGTCCCGGAGGCCAGGCTGCACACCTGGTTGTAGAACACACTCTGGAATTCTCTATTCCCCTGGATGGGGACAATCATAGATGATGGGGGAAGTGACCCGTGGGTAAAAGTCCAGGCCATCGGGGAGGCTGGGAGGGGACCGGTGCTCTCCTGCTGTGTGGCTTGGGGCTTGTTGCCTCTCTTCTCTGAGACCGCATTTCCTCTTTCATCCTGTGGAGTCTGTGAGGAGACCAGATGGGCGTGCGTGTGGCACCGGCCTGTGATGCTCTGCCAACTACAAATGCTGCTCCTCTGGAGGGCGGGTCCCCGGTGCTGTGGGACCTCGGCCTGCCCCGCCTAACTCTGTATCCTGGCTTCTTCACAG
Seq C2 exon
GTTTTCCAGCGGAGGATGGATGGCTCTGTGGACTTCTATCGGGACTGGGCCGCATACAAGCAGGGCTTCGGCAGTCAGCTGGGGGAGTTCTGGCTGGGGAATGACAACATCCACGCCCTGACTGCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000085265-FCN1:NM_002003:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.010
Domain overlap (PFAM):
C1:
PF0014713=Fibrinogen_C=PU(19.7=97.7)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(20.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCACGCAACTGCAAGG
R:
GGCAGTCAGGGCGTGGAT
Band lengths:
254-654
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)