BtaINT0058925 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77535823-77537098:+
Coord C1 exon
chr15:77535823-77535949
Coord A exon
chr15:77535950-77536930
Coord C2 exon
chr15:77536931-77537098
Length
981 bp
Sequences
Splice sites
5' ss Seq
CTGGTGCGT
5' ss Score
8.29
3' ss Seq
CTTCCGGCTTCCCGCCTCAGGCA
3' ss Score
7.61
Exon sequences
Seq C1 exon
ACTGTGGCCTGCGACCCCTGTTCGAGAAGAAGCAGGTGCAGGACCAAACGGAGAAGGAGCTTTTCGAGTCCTACATCGAGGGGCGCATCGTGGAGGGTCAGGACGCGGAGGTTGGCCTCTCGCCCTG
Seq A exon
GTGCGTGCTCCTCGCCTCCCCCGTGCCCTCTCCCCGCCCCCCACCACGCGCCCCGGAGCCTTCTCCGCGCTCACAGACTTAGGCTCCACTGGTAACCTAGCCACACCAGCATCGCATCGAATCCTCACTGTCACCTACTTAGATTTGGGTTTGTTACTTCTCCAAATCAGATGGTGAAGCTGAGGCTCAGAGCGCTTAAGGGACTCGTCTAAATGATGCTGTTAGTGAATGGGTTACATAGCAGGACTCGATTCCAGTTCTTTGATTCTCTGCTAGGCTGTGCCAACTGTGGCCTGGAAAAAGCTCAATGCGGTGGAAGCAAAATGCAGGTGGCTGCCTCTTCGTGTCACATGGATGCCCTGTCCCCAAGGGTGGCCAGGTCAAGCTGGGGTCTGGGCCCAGCAGTTAGCTCTAATTAGTTCTTAAACTTGGGACTTTACGCTTGTTTTTGTTGTTCAGTCACTAAGTCGTGTCCAACTCTCTGCAATCCCATGGACTGCAGCACACCAGGCTTCCCTGTCCTTCACTATCTCCCAGAGTTTGCCCAAACTCATGTCCATTGAGTCGGTGACACCATCCAACCATCTCATCCTCTGTCGTCCCCTTCTCCTCCCACCCTCAATCTTTCCCAGCATCAGGGTCTTTTCCAGTGAGTCAGCTCTTCGCATCAGGTGGCCAAAGGACTGCAGGGTCGGCATCAGTCCTTCTAATGAATATTCAGAATTTATTTCCTTTAGATTGACAGGTTGGATCTCCTTGCTGTCCAGGGGACTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTCGGCGCTCTGCCTTCTTTATGGTCCAATTCTCACATCCATACATGACCACTGGAAAAACCATAGCTTTGACTAAGACGGACCTTTCTGCTTGTAGGGCTGGTGAATGGGGCAGCCCCCCGCCCAACCCTGCCACCACCTAATGCTTCCGGCTTCCCGCCTCAG
Seq C2 exon
GCAGGTGATGCTCTTTCGTAAGAGTCCCCAGGAGCTGCTCTGTGGGGCCAGCCTCATCAGTGACCGCTGGGTCCTCACGGCTGCCCACTGTCTCCTGTACCCGCCTTGGGACAAGAACTTCACCGTGGATGACCTGCTGGTGCGCATCGGCAAGCACTCCCGCACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148:ENSBTAT00000009406:9
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:
PF093965=Thrombin_light=PD(57.1=65.1),PF0008921=Trypsin=PU(5.2=30.2)
A:
NA
C2:
PF0008921=Trypsin=FE(22.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCGACCCCTGTTCGAGAAG
R:
CTGGTGCGGGAGTGCTTG
Band lengths:
287-1268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development