HsaINT0059166 @ hg19
Intron Retention
Gene
ENSG00000180210 | F2
Description
coagulation factor II (thrombin) [Source:HGNC Symbol;Acc:3535]
Coordinates
chr11:46744730-46745068:+
Coord C1 exon
chr11:46744730-46744835
Coord A exon
chr11:46744836-46744931
Coord C2 exon
chr11:46744932-46745068
Length
96 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
TGGGCAATTTCCTGTTCCAGAAT
3' ss Score
6.68
Exon sequences
Seq C1 exon
GTAACTGTGCTGAGGGTCTGGGTACGAACTACCGAGGGCATGTGAACATCACCCGGTCAGGCATTGAGTGCCAGCTATGGAGGAGTCGCTACCCACATAAGCCTGA
Seq A exon
GTGAGTGAGGGGCCGGCCTTCCCACCATGGGCTGAGAACAGGGAGCAAGCGTACCTCAAGCCCAACAGCCTCCTGTTGGGCAATTTCCTGTTCCAG
Seq C2 exon
AATCAACTCCACTACCCATCCTGGGGCCGACCTACAGGAGAATTTCTGCCGCAACCCCGACAGCAGCACCACGGGACCCTGGTGCTACACTACAGACCCCACCGTGAGGAGGCAGGAATGCAGCATCCCTGTCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000180210-F2:NM_000506:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.453
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(41.8=91.7)
A:
NA
C2:
PF0005113=Kringle=PD(57.0=95.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACGAACTACCGAGGGCATGT
R:
TGTAGTGTAGCACCAGGGTCC
Band lengths:
178-274
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)