HsaINT0059170 @ hg19
Intron Retention
Gene
ENSG00000180210 | F2
Description
coagulation factor II (thrombin) [Source:HGNC Symbol;Acc:3535]
Coordinates
chr11:46748261-46749713:+
Coord C1 exon
chr11:46748261-46748387
Coord A exon
chr11:46748388-46749545
Coord C2 exon
chr11:46749546-46749713
Length
1158 bp
Sequences
Splice sites
5' ss Seq
TTGGTGTGT
5' ss Score
3.29
3' ss Seq
CTTCCTGCTGCCCCTCCCAGGCA
3' ss Score
8.88
Exon sequences
Seq C1 exon
ACTGTGGGCTGCGACCTCTGTTCGAGAAGAAGTCGCTGGAGGACAAAACCGAAAGAGAGCTCCTGGAATCCTACATCGACGGGCGCATTGTGGAGGGCTCGGATGCAGAGATCGGCATGTCACCTTG
Seq A exon
GTGTGTCCTGGAGCCCTGCGCTACCATTCACTCCTGGGGGCAGGTGTGCTGCTGGACCCCCACCCTCAGGCCCTGCCTGCAGGCCTGGGCTTTACAGATGACAACAGCTGAGCATCCAGGATCCCACCAACTCCACACAGCAGCCACATGAGATGGGTTGTTTACTTCTTTTTTTTTGTTTCTTAGATGGAGTCTTGCTCTGTCACCTAGGCTGGAGTGCAGTGCTGCAATCTCGGCTCACTACCTCGATCTCAGCTCACTGCAACTTCTGCCTTCCGGGTTCAAACGATTCTCTTGCCTCAGCCTCCTGAGTAGCTGAATTTACAGACATGCGCCACCACACCCGGCTAATTTTTGTATTTTAAGTAGAGACAGGGTTTCACCATGTTGGCCAGGCTGGTCTTGAACTCCTGACCTCAAGTGATCCACCTGCCTCAGCCTCCCAAAGTGCCGGGATTACAGGCATGAGCCACCACACCCGGCCCATGGGTCCTTTACTTCTAAGCAGATGGTAAAGCTGAGACTGACGGAGCTGGTGGCTCACCTCCGCGCACAGCTAATGGGTTTGAATCCAGTTCTTCTGATTCCAGAGCTGTGCTACGCTATGTGAACTCTGGACTGGAAGGACCTAGTTAGGGGGTGCAAAAAGCAGGAGGCAGGTCAGGTGCAGTGGCTCACCCCTGTAATCCCAGCACTTTGGGAGGCCAAGACAGGAAGATCACTTGAGGGCAGGAGTTCGAGGCCAGCCTGGGCAAAATGGTAAAACCCCGTCTCTACTAAAAATGCAAAAATTAGCCAGGTGTAGCAGCATGTCCCTGTAGTCCCAGCTACTAAGGAGGCTGAGGCGGGAGGATCGCCTGAGCCCAGGAGGCTGAGGCTTCAGTAAGCTGTGACTGTACCATTGCACTCCAGCCTGGGTGACAAGAGTGAGACCCTGTCTCAAAAATAAATAAATAAATAAATAAAAAAGTGTGAGGCAGCCCCTCAGCATCACACGGAGGCTCCAGGCCCCAAAGGCGGCCAGCCCAAGCTTGGATCTGGGCCCCGGAGGCAGCTCTGCCCAGCTGGGTTCTTAGACCTGGGATTGTTACTTCTAGGGCTGGTGTAGAGGCAGCCCCCTCATCCTCAGCTCCTAATGCTTCCTGCTGCCCCTCCCAG
Seq C2 exon
GCAGGTGATGCTTTTCCGGAAGAGTCCCCAGGAGCTGCTGTGTGGGGCCAGCCTCATCAGTGACCGCTGGGTCCTCACCGCCGCCCACTGCCTCCTGTACCCGCCCTGGGACAAGAACTTCACCGAGAATGACCTTCTGGTGCGCATTGGCAAGCACTCCCGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000180210-F2:NM_000506:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093965=Thrombin_light=PD(57.1=65.1),PF0008921=Trypsin=PU(14.3=30.2)
A:
NA
C2:
PF0008921=Trypsin=FE(22.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGGGCTGCGACCTCT
R:
CTGGTGCGGGAGTGCTTG
Band lengths:
294-1452
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)