HsaINT0063321 @ hg19
Intron Retention
Gene
ENSG00000160339 | FCN2
Description
ficolin (collagen/fibrinogen domain containing lectin) 2 (hucolin) [Source:HGNC Symbol;Acc:3624]
Coordinates
chr9:137777085-137777743:+
Coord C1 exon
chr9:137777085-137777212
Coord A exon
chr9:137777213-137777613
Coord C2 exon
chr9:137777614-137777743
Length
401 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
GTCCCCTGGCTTCTCCACAGGTT
3' ss Score
10.13
Exon sequences
Seq C1 exon
GCCCGCGTACCTGCAAGGACCTGCTAGACCGAGGGCACTTCCTGAGCGGCTGGCACACCATCTACCTGCCCGACTGCCGGCCCCTGACTGTGCTCTGTGACATGGACACGGACGGAGGGGGCTGGACC
Seq A exon
GTGAGTGTGGGGCTGGGCAGAGGCGGTCAGCCTGGGAGTCCCGGAGGCCAGGCTGCACACCTGGTGGGAGAACACACTCTGGAATTCTCTATTCTCCTGGTCGGGGACAGTCAGAGATGATGGGGGAGATGACCGGTGGGTAAAAGTCCAGGCCTTTGGGGGAGGCTGGGAGAGGTTGGGTGCTCTCCTGCTGTGTGGCTTGGGGCTTGTTGCCTCCCCTCTCTGAGCCCCCATTTCCTCCTTCATCCTGTGGAGTCTGTGAGGAGAACAGGTGGGCGTGCTGGTGACCCCGCCTGTGATGCTCTGCCAACTACAAATGCTGCTCCTCTGGAGGGCGGGTCCCCCGTGCTGTGGGACGTCGGCCTGGCCCCCCCGGCTCCTGTCCCCTGGCTTCTCCACAG
Seq C2 exon
GTTTTCCAGCGGAGGGTGGATGGCTCTGTGGACTTCTACCGGGACTGGGCCACGTACAAGCAGGGCTTCGGCAGTCGGCTGGGGGAGTTCTGGCTGGGGAATGACAACATCCACGCCCTGACCGCCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160339-FCN2:NM_004108:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.039 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(2.6=2.3),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
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:
CGTACCTGCAAGGACCTGCTA
R:
GGTCAGGGCGTGGATGTTG
Band lengths:
246-647
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)