HsaINT0059162 @ hg19
Intron Retention
Gene
ENSG00000180210 | F2
Description
coagulation factor II (thrombin) [Source:HGNC Symbol;Acc:3535]
Coordinates
chr11:46760598-46761056:+
Coord C1 exon
chr11:46760598-46760668
Coord A exon
chr11:46760669-46760814
Coord C2 exon
chr11:46760815-46761056
Length
146 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
ACCTCATCTTTCTTCTTCAGAGC
3' ss Score
11.09
Exon sequences
Seq C1 exon
GTTACAAGCCTGATGAAGGGAAACGAGGGGATGCCTGTGAAGGTGACAGTGGGGGACCCTTTGTCATGAAG
Seq A exon
GTAAGCTTCTCTAAAGCCCAGGGCCTGGTGAACACATCTTCTGGGGGTGGGGAGAAACTCTAGTATCTAGAAACAGTTGCCTGGCAGGGGAATACTGATGTGACCTTGAACTTGACTCTATTGGAAACCTCATCTTTCTTCTTCAG
Seq C2 exon
AGCCCCTTTAACAACCGCTGGTATCAAATGGGCATCGTCTCATGGGGTGAAGGCTGTGACCGGGATGGGAAATATGGCTTCTACACACATGTGTTCCGCCTGAAGAAGTGGATACAGAAGGTCATTGATCAGTTTGGAGAGTAGGGGGCCACTCATATTCTGGGCTCCTGGAACCAATCCCGTGAAAGAATTATTTTTGTGTTTCTAAAACTATGGTTCCCAATAAAAGTGACTCTCAGCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000180210-F2:NM_000506:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(18.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(14.8=77.1)
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:
CCTGATGAAGGGAAACGAGGG
R:
GATTGGTTCCAGGAGCCCAGA
Band lengths:
242-388
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)