BtaALTA0014307-2/2 @ bosTau6
Alternative 3'ss
Gene
ENSBTAG00000013162 | HSPA8
Description
Bos taurus heat shock 70kDa protein 8 (HSPA8), mRNA. [Source:RefSeq mRNA;Acc:NM_174345]
Coordinates
chr15:34218908-34219413:-
Coord C1 exon
chr15:34219208-34219413
Coord A exon
chr15:34219010-34219060
Coord C2 exon
chr15:34218908-34219009
Length
51 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTAATCTTTTTTCTTGCTAGACG
3' ss Score
8.38
Exon sequences
Seq C1 exon
ATGCCAAACGACTTATTGGACGAAGATTTGATGATGCTGTTGTCCAGTCTGATATGAAACATTGGCCCTTCATGGTGGTGAATGATGCTGGCAGGCCTAAGGTTCAAGTAGAATACAAGGGAGAGACAAAGAGTTTTTACCCAGAGGAGGTGTCATCCATGGTCCTGACAAAGATGAAGGAAATCGCAGAAGCCTACCTTGGGAAG
Seq A exon
ACGGTTACCAACGCTGTCGTCACAGTACCTGCCTATTTTAATGACTCTCAG
Seq C2 exon
CGTCAGGCTACCAAAGATGCTGGAACTATTGCTGGTCTCAACGTACTTCGAATCATCAATGAGCCAACTGCTGCTGCTATTGCCTATGGCTTAGACAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013162-8-5,8-4-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0001215=HSP70=FE(11.2=100)
A:
NA
C2:
PF0001215=HSP70=FE(8.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTGTCATCCATGGTCCTGA
R:
CCATAGGCAATAGCAGCAGCA
Band lengths:
148-199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development