BtaINT0058913 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77530565-77531156:+
Coord C1 exon
chr15:77530565-77530648
Coord A exon
chr15:77530649-77530992
Coord C2 exon
chr15:77530993-77531156
Length
344 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
CAGCCTCCTCCCCCCTGCAGTGT
3' ss Score
9.31
Exon sequences
Seq C1 exon
ACACCATGGCGCGCGTCCGAGGCCCGCGGCTGCCTGGCTGCCTGGCCCTGGCTGCCCTGTTCAGCCTCGTGCACAGCCAGCATG
Seq A exon
GTAAGGGGGGCGCTGGAAGCTGTGATAGGCTGGCGGACTGCGGTGTGGGTCTGTGGGCTGGGGGTCTCCACCGAGAGAAACAGGGCTGGTCCCCAGATCCTCACCATGTCCAGCTCAGGGAAGGACCCGGCCGCTCCGGGCCGGACAGACAGTGACTACTGCTCTCAGGCAATATGGAAGGTGGGCTGGGGGTGACCCATGAAAGGAGAGGGCTAGTGGGCTGCCACTAGCAGCCTTCCGGGGCCTGCCGCCATCCCGGAGTCCCCCTCCCCCGTTTCGGAAGCCAGCAGAGCTTGCCTCCTGCCCCCACGGTGGCCATCGTCCCAGCCTCCTCCCCCCTGCAG
Seq C2 exon
TGTTCCTGGCCCATCAGCAAGCATCCTCGCTGCTCCAGAGGGCCCGCCGTGCCAACAAGGGCTTCCTGGAGGAGGTGCGGAAGGGCAACCTGGAGCGAGAGTGCCTGGAGGAGCCATGCAGCCGCGAGGAGGCCTTCGAGGCCCTGGAGTCTCTCAGTGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148:ENSBTAT00000009406:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0059415=Gla=PU(76.2=58.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGGCTGCCCTGTTCAG
R:
TGGCACTGAGAGACTCCAGG
Band lengths:
200-544
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development