BtaINT0058917 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77544466-77544935:+
Coord C1 exon
chr15:77544466-77544536
Coord A exon
chr15:77544537-77544670
Coord C2 exon
chr15:77544671-77544935
Length
134 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
ACCCCATATTTCTTCCTCAGAGC
3' ss Score
9.88
Exon sequences
Seq C1 exon
GTTACAAGCCTGGTGAAGGCAAACGAGGGGACGCTTGTGAGGGCGACAGCGGGGGACCCTTCGTCATGAAG
Seq A exon
GTAAGCGTCTCCGAAGGCCCGGAACTGGTGGGGAGATCCTTCTGGGTGGACGGGAGGGACCCGAGGATTCAGGAACAATCAATTGACCCTACCTTGGACTCGACTCTATTGGAAACCCCATATTTCTTCCTCAG
Seq C2 exon
AGCCCCTATAACAACCGCTGGTATCAAATGGGCATCGTCTCATGGGGTGAAGGCTGTGACAGGGATGGAAAATATGGCTTCTACACACACGTCTTCCGCCTGAAGAAGTGGATACAGAAAGTCATTGATCGGTTAGGAAGTTAGGGAGCCACCCACATTCCAGGCTCCTCACTGCAAAATCTCAGAGGCCAATCCAGTGAATGAATTATTTTTGTGGTTTGTTCCTAAAACTATCTTTCTCAATAAAAGTGACTCTATCAACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148:ENSBTAT00000009406:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(9.2=100)
A:
NA
C2:
PF0008921=Trypsin=PD(14.8=77.1)
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:
CTGGTGAAGGCAAACGAGGG
R:
ATTTTGCAGTGAGGAGCCTGG
Band lengths:
242-376
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development