BtaALTD0008127-2/2 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77533656-77535317:+
Coord C1 exon
chr15:77533656-77533792
Coord A exon
chr15:77533793-77533865
Coord C2 exon
chr15:77535003-77535317
Length
73 bp
Sequences
Splice sites
5' ss Seq
CGGGTTAGT
5' ss Score
4.94
3' ss Seq
TCTCTCTCCTCACCCACCAGGCC
3' ss Score
9.56
Exon sequences
Seq C1 exon
AATCAACTCTACCACCCACCCGGGGGCTGACCTGCGGGAGAATTTTTGCCGCAACCCGGATGGCAGCATTACTGGGCCCTGGTGCTACACCACATCCCCGACTCTGCGGAGAGAAGAGTGCAGCGTCCCCGTGTGCG
Seq A exon
GTGAGCGGGGGCGGTCGGTGGCCCAAGGCCACAGCCAGGATGGGAATCGAGATGCCAGCGCCCTCTGACCCGG
Seq C2 exon
GCCAGGACCGAGTCACAGTGGAGGTGATCCCCCGGTCAGGAGGCTCCACTACCAGTCAGTCGCCTCTACTGGAAACATGCGTCCCGGACCGCGGCCGGGAGTACCGGGGGCGGCTGGCGGTGACCACAAGCGGGTCCCGCTGCCTTGCCTGGAGCAGCGAGCAGGCCAAGGCCCTGAGCAAGGACCAGGACTTCAACCCGGCCGTGCCCCTGGCGGAGAACTTCTGCCGCAACCCAGACGGGGACGAGGAGGGCGCCTGGTGCTACGTGGCCGACCAGCCTGGCGACTTTGAGTATTGTGACCTGAACTACTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148-6-11,7-11-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.298 A=NA C2=0.264
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(57.0=95.7)
A:
NA
C2:
PF0005113=Kringle=WD(100=74.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAATTTTTGCCGCAACCC
R:
TCCAGTAGAGGCGACTGACTG
Band lengths:
174-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development