HsaINT0059169 @ hg19
Intron Retention
Gene
ENSG00000180210 | F2
Description
coagulation factor II (thrombin) [Source:HGNC Symbol;Acc:3535]
Coordinates
chr11:46748048-46748387:+
Coord C1 exon
chr11:46748048-46748176
Coord A exon
chr11:46748177-46748260
Coord C2 exon
chr11:46748261-46748387
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CTGCTTGGCTTGCTCTGCAGACT
3' ss Score
8.1
Exon sequences
Seq C1 exon
AGGAGGCCGTGGAGGAGGAGACAGGAGATGGGCTGGATGAGGACTCAGACAGGGCCATCGAAGGGCGTACCGCCACCAGTGAGTACCAGACTTTCTTCAATCCGAGGACCTTTGGCTCGGGAGAGGCAG
Seq A exon
GTGAGGTAGTGGGCATCCGAGGGGATGCGGGGCTGCGGGGCTGGTGGCCAGGACTTGCCCCTCACTGCTTGGCTTGCTCTGCAG
Seq C2 exon
ACTGTGGGCTGCGACCTCTGTTCGAGAAGAAGTCGCTGGAGGACAAAACCGAAAGAGAGCTCCTGGAATCCTACATCGACGGGCGCATTGTGGAGGGCTCGGATGCAGAGATCGGCATGTCACCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000180210-F2:NM_000506:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.379 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093965=Thrombin_light=PU(40.8=45.5)
A:
NA
C2:
PF093965=Thrombin_light=PD(57.1=65.1),PF0008921=Trypsin=PU(14.3=30.2)
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:
AGATGGGCTGGATGAGGACTC
R:
TCCAGGAGCTCTCTTTCGGTT
Band lengths:
171-255
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)