HsaINT0063310 @ hg19
Intron Retention
Gene
ENSG00000085265 | FCN1
Description
ficolin (collagen/fibrinogen domain containing) 1 [Source:HGNC Symbol;Acc:3623]
Coordinates
chr9:137806602-137808307:-
Coord C1 exon
chr9:137808194-137808307
Coord A exon
chr9:137806656-137808193
Coord C2 exon
chr9:137806602-137806655
Length
1538 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
TATGTCTTTGGAATTTTCAGGAG
3' ss Score
7.09
Exon sequences
Seq C1 exon
AGGTGAAGGTGGTGGGCCTGGAGGGCTCTGACAAGCTCACCATTCTCCGAGGCTGCCCGGGGCTGCCCGGGGCCCCAGGGCCAAAGGGAGAGGCAGGTGTCATTGGAGAGAGAG
Seq A exon
GTAGGTGCGGGCCGGGTGGGGAGGCCAGGCATGGCAGGGGCACTGGCTCTTGCTCTTTATGAAACTGGATGCAGAGTTGGGCAACACCCCCACCGTGGTTCCTAGATCAAGAGCCTGGGTCAGGCCCCTGCTAGAGCCAGGAACAGAGCTGACTCCCAGGGCCCAACAGGGTTCTGAAATGGAGGGAGGGTCTTTCCTAACTATTTCATGAGCTCACATTTGGACATGCTTCTGTAGCTCTGTCTCCTAGTCCTTGATCCAATACCAGCTTTGCTCAGCTACTGGCACGACTTCTAAGCTCTGTGTCCCTCCACCTTCTCACCTGAAAATTGAGGTGACCGCTTTCTTCTGCACCTGCCTCATATGGGAAAACTGAGACTCAAAGAGGTCACAGGCTTTCCTACTTGACAAACCAGTAAGGAGTGGGGCTGGGACTTGGACTGGTCTACTTCAGGGCACAGAGGGCACCCGAATCCTGAGCCCTGAGCTCTGCATGTGGATTTGCAGGGAACATGGGAGAATGAACAGCAGGCACCTGCCTTGGGTGGTTTTGGGTCCCCCTAAGCATGGCATAAGGCAGACGTGCACAAAAACTCAGAAAGGGCGCTGCCTTAGGGGGTGAGCTCCCCATGCCTGGACGCATTCAAGATGATGCCTGCGGAGCACTTGGTGGGGATGTCCCAGTGTAGATGGGACAAGCTCAAATGTCCCTATGACTTGGACTTTCACTGACGTGTCTAGGCTTCCGTGTGGGTGTCCGGGGCCAGGTCCTCTGTGCCCACTCCGCAGGCTGGACCTGAGAGTGCGGTCCCGATCCCCTGCTGAGGGAACACTGGGGAGGAAGACCTTCCCTGGCAGGAGAAGAATCAAGTCTGGCTCAGACTTCCCTTGAACCAGGCTTCTACCAGTGGGCATGGCTGGCTAATATACCCTAAAGCAAGAACCAGCCCCCATACACTCTCCCCAGCCACTGGGGTCAGCGAGCGGGCTGGGGGCTGCCTCTTGGCTGGCATCGGGGACGGGAGGGTCACCTTTCTGGCCAGAACCACGTGGAGCGCTGTGTGACACCCCAGGAGCTCAGGCGCACGGTGGAACCGGATCCTCCCTGGCAGCAGCGGCTGCACGTGGCGCCCACCCTCTCCGTGTGGGGACGTGGTAGGATGAGGCTCTCTGAGGACGCATTCTTTGTTCCAGAACCTGGTCCCTTGCTAGGCAGTAGAGCTCTGTGTGGGTGACTTGGGTCCAGGCTTATGGTCAACAGAGTGTGAAACCCAGGTTGCTCCCAAGGCACAAACAGGAGCAAGGTGCACCTTGCCTTGAGCCCAAGGTGGGGTGCAGGCCCCTCCCTCAATCCCTCACCTCCATCTGCAGTCACCCCCAGGCTAAATCCATGGCTAGCAATTCTGAGAGCTCCTGGAACCAGAAGGGGTTCAAGGCAGAGTGGGGGAGGGTCAGGACTTAACCACTTGGGGCAAAGATTTCCAGGGAGAATTGTTTAGGTTGCATTTTTCTCAGTGATATGTCTTTGGAATTTTCAG
Seq C2 exon
GAGAACGCGGTCTCCCTGGAGCCCCTGGAAAGGCAGGACCAGTGGGGCCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000085265-FCN1:NM_002003:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.419 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PU(37.7=59.0)
A:
NA
C2:
PF0139113=Collagen=FE(29.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
- 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)