HsaINT0059168 @ hg19
Intron Retention
Gene
ENSG00000180210 | F2
Description
coagulation factor II (thrombin) [Source:HGNC Symbol;Acc:3535]
Coordinates
chr11:46747409-46748176:+
Coord C1 exon
chr11:46747409-46747723
Coord A exon
chr11:46747724-46748047
Coord C2 exon
chr11:46748048-46748176
Length
324 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGC
5' ss Score
6.64
3' ss Seq
CGGTGCCTGGGTCCCAACAGAGG
3' ss Score
6.27
Exon sequences
Seq C1 exon
GCCAGGATCAAGTCACTGTAGCGATGACTCCACGCTCCGAAGGCTCCAGTGTGAATCTGTCACCTCCATTGGAGCAGTGTGTCCCTGATCGGGGGCAGCAGTACCAGGGGCGCCTGGCGGTGACCACACATGGGCTCCCCTGCCTGGCCTGGGCCAGCGCACAGGCCAAGGCCCTGAGCAAGCACCAGGACTTCAACTCAGCTGTGCAGCTGGTGGAGAACTTCTGCCGCAACCCAGACGGGGATGAGGAGGGCGTGTGGTGCTATGTGGCCGGGAAGCCTGGCGACTTTGGGTACTGCGACCTCAACTATTGTG
Seq A exon
GTGAGCTGCCTGGGTAGGGGGCCTGAGTTGCAGGGACAAATCCTGGTGGGAATAACAACAGCCGCTTCTGCTTATCGAACGCTTACCTCATTGAGTGCGCTCATTACAGCCTTACAGTAACCAGGTGGGGGGTAAGGTCCTGTGCCCATTTCACAGATAAGTACACTGAGGCCCCAGGAGGTTATTGCCTAGTAGCCCAACTGTGCATGCACGCTTAACCTCTGCACCAAATGGCCTCCAAGGCCCGTAGGGGAATTGGGGGGATCTAGGGGATGGGTGAGGAATGGCCCAGCCCAGTCCCAGCCGGTGCCTGGGTCCCAACAG
Seq C2 exon
AGGAGGCCGTGGAGGAGGAGACAGGAGATGGGCTGGATGAGGACTCAGACAGGGCCATCGAAGGGCGTACCGCCACCAGTGAGTACCAGACTTTCTTCAATCCGAGGACCTTTGGCTCGGGAGAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000180210-F2:NM_000506:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=0.379
Domain overlap (PFAM):
C1:
PF0005113=Kringle=WD(100=74.5)
A:
NA
C2:
PF093965=Thrombin_light=PU(40.8=45.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGTAGCGATGACTCCACG
R:
AGTCCTCATCCAGCCCATCTC
Band lengths:
347-671
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)