HsaALTD0006160-1/2 @ hg19
Alternative 5'ss
Gene
ENSG00000152253 | SPC25
Description
SPC25, NDC80 kinetochore complex component, homolog (S. cerevisiae) [Source:HGNC Symbol;Acc:24031]
Coordinates
chr2:169745897-169746955:-
Coord C1 exon
chr2:169746828-169746955
Coord A exon
NA
Coord C2 exon
chr2:169745897-169746043
Length
0 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
AATATGTATTCTGTTTTTAGCAT
3' ss Score
7.15
Exon sequences
Seq C1 exon
AAGTGCACTAGGTTTGAAATCGGAAAGTTGGCGGGGCTGCGGGAGCTGAGCCTAGAGTCCGGCTGTTGGCTAGAGTGGGCGCGGATCTGGTGTGGGGAAGGCGGCGGGACTCAGGCCTGCCTGCGAAG
Seq A exon
NA
Seq C2 exon
CATTGTCCTACATAATGGTAGAGGACGAACTGGCACTTTTCGATAAAAGCATAAATGAATTTTGGAATAAATTCAAAAGTACGGACACCTCCTGTCAGATGGCGGGACTAAGAGATACCTACAAGGATTCCATCAAAGCATTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000152253-3-2,4-2-1/2
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:
PF131661=AAA_13=PU(23.9=84.4),PF083176=Spc7=PU(14.7=53.3),PF101864=Atg14=PU(15.2=42.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
AGTGCACTAGGTTTGAAATCGGA
R:
TCTCTTAGTCCCGCCATCTGA
Band lengths:
242-431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)