BtaINT0058915 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007148 | F2
Description
Bos taurus coagulation factor II (thrombin) (F2), mRNA. [Source:RefSeq mRNA;Acc:NM_173877]
Coordinates
chr15:77537597-77538195:+
Coord C1 exon
chr15:77537597-77537770
Coord A exon
chr15:77537771-77538013
Coord C2 exon
chr15:77538014-77538195
Length
243 bp
Sequences
Splice sites
5' ss Seq
CAAGTTGGG
5' ss Score
-3.35
3' ss Seq
TCCTTCTCCCTTCCCCAAAGGCT
3' ss Score
9.23
Exon sequences
Seq C1 exon
GTATGAGCGGAAGGTTGAAAAGATCTCCATGCTGGACAAGATCTACATCCACCCCAGGTACAACTGGAAGGAGAATCTGGACCGGGACATCGCCCTGCTGAAGCTCAAGAGGCCCATCGAGTTATCCGACTACATCCACCCCGTGTGCCTGCCCGACAAGCAGACAGCAGCCAA
Seq A exon
GTTGGGCAGCCAGGAGGGCAGCGGGGGGGGTGGTGGAGGGGGCGGCTTGAGGCTGAGGGGGCCTGGGCTGGGTTCTGGGCCCAACTCGCACATCCTGTCGCCTTGCCGAAGCTCCTTCCCATTTCCAGGCCTCGGGCCTTCCTGCCACGGGGGTCTTAGGCTCGAGTCTCTACGGGGTGGTGTTGGGGCCAGGAGGCTCCTGGGCGGGTGTGTTCTCACTGGGTCCTTCTCCCTTCCCCAAAG
Seq C2 exon
GCTGCTCCACGCTGGGTTCAAAGGGCGGGTGACGGGCTGGGGCAACCGGAGGGAGACGTGGACCACCAGCGTGGCCGAGGTGCAGCCCAGCGTCCTCCAGGTGGTCAACCTGCCTCTCGTGGAGCGGCCCGTGTGCAAGGCCTCCACCCGGATCCGCATCACCGACAACATGTTCTGTGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007148:ENSBTAT00000009406:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(23.2=100)
A:
NA
C2:
PF0008921=Trypsin=FE(24.4=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:
ACATCCACCCCAGGTACAACT
R:
ATGTTGTCGGTGATGCGGATC
Band lengths:
301-544
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development