BtaINT0058914 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77536931-77537770:+
Coord C1 exon
chr15:77536931-77537098
Coord A exon
chr15:77537099-77537596
Coord C2 exon
chr15:77537597-77537770
Length
498 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
CTCTGCTGGGGTCTGCACAGGTA
3' ss Score
6.22
Exon sequences
Seq C1 exon
GCAGGTGATGCTCTTTCGTAAGAGTCCCCAGGAGCTGCTCTGTGGGGCCAGCCTCATCAGTGACCGCTGGGTCCTCACGGCTGCCCACTGTCTCCTGTACCCGCCTTGGGACAAGAACTTCACCGTGGATGACCTGCTGGTGCGCATCGGCAAGCACTCCCGCACCAG
Seq A exon
GTGCGGAGGGGCCCCCAGGTGTGCGGCGGGACTGTGCGGGCCCCGTGGCTCTGAGACACCGGGGTATGTCTGTGTACGTCTCTCACGGTAGAAAACCCAGCAGTCCCTACTGTAAAGTCGATTTGGCCATGTCCTGACTAAAGCTTGGACCTGGGGACAGGGAAACTAAAAGGCTTGGCAGAGAGCAGAGTCCTGGCCTGCCCTTGGCGCCCCCCAGGCATCAGGACGCGGCCCAGGCGTGAGCCCTGAGTAGAGGTCGTTTGGGTCAGGGCCTGCAGCCTGTGTCCCTCCCGCTACTGCCTGGGCTGCTTGATCCTGAAGCTCCGGGGCAGCTTCAGGCCGAGAAGAAGCTGCCTGGGGCCTGCCAAGGCGGGAGCTGGTCCGATGTTTACCCTGACTTCCAGCCCCTGAGGGCAGGCAGTTTGCCTCCTTGAGGAATCTGCCGACCTCCCTGGGTGGCCTGCAGCTTCTCTTTTTTCTCTGCTGGGGTCTGCACAG
Seq C2 exon
GTATGAGCGGAAGGTTGAAAAGATCTCCATGCTGGACAAGATCTACATCCACCCCAGGTACAACTGGAAGGAGAATCTGGACCGGGACATCGCCCTGCTGAAGCTCAAGAGGCCCATCGAGTTATCCGACTACATCCACCCCGTGTGCCTGCCCGACAAGCAGACAGCAGCCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148:ENSBTAT00000009406:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(22.4=100)
A:
NA
C2:
PF0008921=Trypsin=FE(23.2=100)
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:
CGTAAGAGTCCCCAGGAGCTG
R:
TTGGCTGCTGTCTGCTTGTC
Band lengths:
326-824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development