HsaINT0063319 @ hg19
Intron Retention
Gene
ENSG00000160339 | FCN2
Description
ficolin (collagen/fibrinogen domain containing lectin) 2 (hucolin) [Source:HGNC Symbol;Acc:3624]
Coordinates
chr9:137775148-137776618:+
Coord C1 exon
chr9:137775148-137775201
Coord A exon
chr9:137775202-137776585
Coord C2 exon
chr9:137776586-137776618
Length
1384 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
CCTCTCTCATCCATGAACAGGAG
3' ss Score
8.09
Exon sequences
Seq C1 exon
GAGAACGTGGCCCCCCTGGACCTCCTGGGAAGGCAGGACCACCTGGGCCCAACG
Seq A exon
GTAAGGAGGGGACAAGAGTGAGAAGCGGCTTCAAGGCCCTTCCAGACCTGGCTGCAGAGGAACGTGAGGCGGGTCTTCTGGGGCTGCCACGCTGTCCTCGCCAGAGCCAACGCCTGCCCAGGCAGGGCTCTTGGGGCTTAGTCCAGGGCAGGGGTCTCAGTGTGGGGGAAGGGGTCTCAATGTGTGTGTGGGTTCTCAGTCTGGGGGAGTGGGGTTATCAGTGTGGGAGCTGGTCTCAATGTGTGTAGGGGGTCTCAGTTTGGGGGAGTGGGGTCATCAGTGTGGGGGCAGGGTTCTCAATGTCGGAGGAGGGGTTCTTGGTGGTGTAGGGAGAGGTTCTTGGGGTGTGTGTTGGGGGAGGGGTTCCCGGTGGGCAGGCTGTGGGGAGGTGTTATCAGCAGGGAGGGAGGAGCTGTCAATATGGGGGAGAGATTCTGGGATGGGGGAGAGGTTCTGATTATTCGGGGAGGGACTTTTAGTGTGGGGAGGGGTTCTTAGTGGGGGGGCTGTCTGTATGGGGGGGTTCTCAGGTAGGGGAAGGTTTTCAGTGCAGGAGCATCTGCCCTGTGGGTGGGCCTGAGACCAAATCCTGTCCCTCTAATGTGGAAGTGGTCTTGAGAGGGTGGGGGGGGATTGTCTGCCCACCTCTCTAAGCCTCACTCAGTCCTGGCCTCTGTCCCCTGAGCATGAGGCCCTGTCTTGTCCCCTCCTCCTGACTCTGCTTGAAAACCAGGATCAGCCCCGGATGGCTTGGAGAACCATGCCAACAAGTTCCAAACACAGAATTAGTGGAAATTCTCTGCTTTAAAACAAAGAATTTTCTGATATATTTTCTTGAGGAATAAATTTTGAGGAATCGGAGAAATACGCAGTAGGAAATTGAAGCTCCCTTTACTCACTCACCTTTACCCACAGACCTACTCAGAATAAGACCACCCTACACTCACCAAACCCCAGGCTCAGTCATGGGTTGTGTCTAAACATAAAATACGCAGGTTTGGTGCCCACACCGCAAACAACACTCCCCACATCATATTACTGTGTCCACCAAGATGGGCTGTTTGCAGGCCTTGGGGCCTCAGGAGAAGCCTGAAGATCCAGGCTTCCTTTAGTTGGCATGTGGAGGCCTCAGCAGTCTCTGGGATGGTGGCCTCTGCTTCCCCAGGAACCTCTGAAAGGGGTGCATGTGGTGGAGGGGCCAGTGTAGGCATCCCTCGAGGGAAAGAAAAATTTGGTCAACAGAACCAGGGTCAGGGACTCCTTGGCTGGACCCATACCATCACCTCCTGGGGAGGCCCAGAAAATGGTGTCCGCGGACCAATGGGGGCTGAAGGGCTCTGATTTCCAAACTGTGACACGTGTGTCCTCTCTCATCCATGAACAG
Seq C2 exon
GAGCACCTGGGGAGCCCCAGCCGTGCCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000160339-FCN2:NM_004108:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.935 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(30.0=100)
A:
NA
C2:
PF0139113=Collagen=PD(13.3=66.7),PF0014713=Fibrinogen_C=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
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)