BtaINT0058923 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77535003-77535747:+
Coord C1 exon
chr15:77535003-77535317
Coord A exon
chr15:77535318-77535612
Coord C2 exon
chr15:77535613-77535747
Length
295 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
CCGTGTCTGGGTCCCTGCAGAGG
3' ss Score
8.79
Exon sequences
Seq C1 exon
GCCAGGACCGAGTCACAGTGGAGGTGATCCCCCGGTCAGGAGGCTCCACTACCAGTCAGTCGCCTCTACTGGAAACATGCGTCCCGGACCGCGGCCGGGAGTACCGGGGGCGGCTGGCGGTGACCACAAGCGGGTCCCGCTGCCTTGCCTGGAGCAGCGAGCAGGCCAAGGCCCTGAGCAAGGACCAGGACTTCAACCCGGCCGTGCCCCTGGCGGAGAACTTCTGCCGCAACCCAGACGGGGACGAGGAGGGCGCCTGGTGCTACGTGGCCGACCAGCCTGGCGACTTTGAGTATTGTGACCTGAACTACTGCG
Seq A exon
GTGAGAGGGCAGGGCCGGGGCCGAGAGAGGACGGGGCCTGGCGGTCAGAGCGGGAGCGGAGCCTTCCCTGGCCTCGGGCTTCCCACGTGGGCACAGGGCCTTCCTGAGCCAGGTAGGGGCGAGCCTAGCCCCTGCCCACAGCTGAGGCCAGTGAGGCCCGCGAGCTGCGGTTCGCTAGTAAGGTGCGCTCTTAACCGCCGCCACACGGCCTCCCCGGGGTGCGGGCTCGGGGCAGTCCAGGCAGCGGGTGTGGCATGGCCCGGCCCAGCCGCAGCCCGTGTCTGGGTCCCTGCAG
Seq C2 exon
AGGAGCCGGTGGATGGAGACCTGGGAGACAGGCTGGGTGAGGACCCGGACCCGGACGCGGCCATCGAGGGACGCACGTCTGAGGACCATTTCCAGCCCTTCTTCAACGAGAAGACCTTTGGCGCCGGGGAGGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148:ENSBTAT00000009406:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.264 A=NA C2=0.478
Domain overlap (PFAM):
C1:
PF0005113=Kringle=WD(100=74.5)
A:
NA
C2:
PF093965=Thrombin_light=PU(40.8=43.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTCAGTCGCCTCTACTGGA
R:
CTGTCTCCCAGGTCTCCATCC
Band lengths:
294-589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development