BtaINT0058924 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77535613-77535949:+
Coord C1 exon
chr15:77535613-77535747
Coord A exon
chr15:77535748-77535822
Coord C2 exon
chr15:77535823-77535949
Length
75 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGG
5' ss Score
10.19
3' ss Seq
CGGTCCCGCTTGCCCCTTAGACT
3' ss Score
7.97
Exon sequences
Seq C1 exon
AGGAGCCGGTGGATGGAGACCTGGGAGACAGGCTGGGTGAGGACCCGGACCCGGACGCGGCCATCGAGGGACGCACGTCTGAGGACCATTTCCAGCCCTTCTTCAACGAGAAGACCTTTGGCGCCGGGGAGGCCG
Seq A exon
GTAAGGTGTGGGGGTCACGGCGTGCGGGCGGGGCGTGGCGGCGCTCCACCTCTCACGGTCCCGCTTGCCCCTTAG
Seq C2 exon
ACTGTGGCCTGCGACCCCTGTTCGAGAAGAAGCAGGTGCAGGACCAAACGGAGAAGGAGCTTTTCGAGTCCTACATCGAGGGGCGCATCGTGGAGGGTCAGGACGCGGAGGTTGGCCTCTCGCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148:ENSBTAT00000009406:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.478 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF093965=Thrombin_light=PU(40.8=43.5)
A:
NA
C2:
PF093965=Thrombin_light=PD(57.1=65.1),PF0008921=Trypsin=PU(5.2=30.2)
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:
GTGGATGGAGACCTGGGAGAC
R:
GTCCTGCACCTGCTTCTTCTC
Band lengths:
171-246
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development