HsaINT0059160 @ hg38
Intron Retention
Gene
ENSG00000180210 | F2
Description
coagulation factor II, thrombin [Source:HGNC Symbol;Acc:HGNC:3535]
Coordinates
chr11:46728664-46729561:+
Coord C1 exon
chr11:46728664-46728837
Coord A exon
chr11:46728838-46729379
Coord C2 exon
chr11:46729380-46729561
Length
542 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CCCTTCTTCCTTCCCCAAAGCTT
3' ss Score
9.1
Exon sequences
Seq C1 exon
GTACGAGCGAAACATTGAAAAGATATCCATGTTGGAAAAGATCTACATCCACCCCAGGTACAACTGGCGGGAGAACCTGGACCGGGACATTGCCCTGATGAAGCTGAAGAAGCCTGTTGCCTTCAGTGACTACATTCACCCTGTGTGTCTGCCCGACAGGGAGACGGCAGCCAG
Seq A exon
GTGGGCCACCAGATGCTTGTTAGCTGAGGGGCAGAAGCCAAGTTCTGGGCCTGGCTCTGATACCAAGTAGCCTTGCAAGAGCCCCTTTCCCTTTTCCAGGCCTCGGTTTCTTGGAGTGAACCCAAAAGTTCTTTTCAGTACTGGCGTTTTATTTTTTATTTATATTTATTTATTTACTGACGGAGTTCCACTCTTGTCTCCCAGGCTGGAGTGTAGTTGTGCGATCTTGGCTCACTGCAACCCCACCTCCTGGGTTCAAGCGACTCTCCTGCCTCAGTCTCCTGAGTAGCTGGGATTACAGGCTAATTTTTGTATTTTTAGTAGAGACTGGTGGGTTTCACCGTGTCGGCCAGGTTGGTCTCGAACCCCTGACCTCAAGTGATTCACCCGCCTCGGCCTCCCAAAGTGCCGAGACCACAGGCGTGAACGTCTGTGCCCAGCCAGCTCTGGCGTTTTAGATTCTGGTCTCTAAGAAATGGCGTTGGGGCCAGGCGGCTCCTGTGGGGGTTGGCTCTCACTAGGCCCTTCTTCCTTCCCCAAAG
Seq C2 exon
CTTGCTCCAGGCTGGATACAAGGGGCGGGTGACAGGCTGGGGCAACCTGAAGGAGACGTGGACAGCCAACGTTGGTAAGGGGCAGCCCAGTGTCCTGCAGGTGGTGAACCTGCCCATTGTGGAGCGGCCGGTCTGCAAGGACTCCACCCGGATCCGCATCACTGACAACATGTTCTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000180210:ENST00000311907:11
Average complexity
IR
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:
PF0008921=Trypsin=FE(20.9=100),PF0008921=Trypsin=PU(1.6=10.0)
A:
NA
C2:
PF0008921=Trypsin=PD(2.2=3.2),PF0008921=Trypsin=FE(48.8=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:
ACGAGCGAAACATTGAAAAGAT
R:
TGTTGTCAGTGATGCGGATCC
Band lengths:
342-884
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