BtaINT0058921 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77533453-77533792:+
Coord C1 exon
chr15:77533453-77533558
Coord A exon
chr15:77533559-77533655
Coord C2 exon
chr15:77533656-77533792
Length
97 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGT
5' ss Score
7.36
3' ss Seq
TGAGATGCTTTCTATTCCAGAAT
3' ss Score
7.92
Exon sequences
Seq C1 exon
GAAACTGCGCTGAAGGTGTGGGGATGAACTACCGAGGGAACGTGAGCGTCACCCGGTCAGGCATCGAGTGCCAGCTGTGGAGAAGTCGCTACCCACATAAGCCAGA
Seq A exon
GTGAGTGACGGGCAGGCCTGTCTGCTGAGACGCCGGGGGCGAGGAGACACTGCGGGTGGCGGGGGCGGGCTTCTTGCTGAGATGCTTTCTATTCCAG
Seq C2 exon
AATCAACTCTACCACCCACCCGGGGGCTGACCTGCGGGAGAATTTTTGCCGCAACCCGGATGGCAGCATTACTGGGCCCTGGTGCTACACCACATCCCCGACTCTGCGGAGAGAAGAGTGCAGCGTCCCCGTGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148:ENSBTAT00000009406:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.056 A=NA C2=0.298
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PU(41.8=91.7)
A:
NA
C2:
PF0005113=Kringle=PD(57.0=95.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGATGAACTACCGAGGGAA
R:
TAGCACCAGGGCCCAGTAATG
Band lengths:
174-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development