BtaALTD0020752-2/3 @ bosTau6
Alternative 5'ss
Gene
ENSBTAG00000010048 | SPC25
Description
Bos taurus SPC25, NDC80 kinetochore complex component, homolog (S. cerevisiae) (SPC25), mRNA. [Source:RefSeq mRNA;Acc:NM_001034230]
Coordinates
chr2:27296811-27298120:+
Coord C1 exon
chr2:27296811-27296911
Coord A exon
chr2:27296912-27296953
Coord C2 exon
chr2:27297968-27298120
Length
42 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
GTGTCCTATTTGTTTTGTAGCCT
3' ss Score
8.38
Exon sequences
Seq C1 exon
CAAAGGCGGGAGGCGGAAGGCGCCTTAGGTTTGAAATAGGAAAGCTGGCTTGGCTGCGGCAGCGGATTTTGGAGTTCGGCTGTTGATTGAAATCGATTCAG
Seq A exon
GTCTTGTGGGGCAGGTGGCCGGGCTCAGGCCTGCCGGAGAAG
Seq C2 exon
CCTTGTCTTACAAAATGGTAGAGGATGAACTGGCACTATTTGATAAAAGCATAAATGAATTTTGGAATAAATTCAAAAGCACTGTCAGTGACACCTCCTGTCAGATGGTGGGACTAAGAGAAACCTACAAGGACTCCATTAAAGCATTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010048-0-0,1-0,2-0-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF083176=Spc7=PU(24.6=91.5),PF131661=AAA_13=PU(25.2=85.1),PF086146=ATG16=PU(27.9=76.6),PF039618=DUF342=PU(21.0=63.8),PF101864=Atg14=PU(20.0=53.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGATTTTGGAGTTCGGCTGT
R:
ACAGGAGGTGTCACTGACAGT
Band lengths:
140-182
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development