HsaALTA0007700-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000116560 | SFPQ
Description
splicing factor proline/glutamine-rich [Source:HGNC Symbol;Acc:10774]
Coordinates
chr1:35641972-35643262:-
Coord C1 exon
chr1:35642920-35643262
Coord A exon
chr1:35642073-35642075
Coord C2 exon
chr1:35641972-35642072
Length
3 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
3' ss Seq
TAATCATACCCTTTAATTAGCAG
3' ss Score
1.87
Exon sequences
Seq C1 exon
TTTTTACTTAAGAAAATGTAGGAGAAGGTCAGGCATGGTGGCTTTACACCTATATTCCTAGCACTTTGGGAGGCAGAAGTGGGAGGATTGCTTGAGCCCAGCCTGGGCAAAATAGTGAGACCATGTCTCTACAGAAAAAAATATAGCCAGGTGTGGTGGTGTGTGCCTGTGGTCCCAGCTCCCTTGGAGGCTGAGGTGGGAGGGATCGCTTGATCCTGGGAGGTTGAGGCTGCAGTGAGCAAGTTAACATTTTTTGTTACAGGTGGATAGATACTTCTCAAGACATCACACAGCGTGAGTCAATCAAGGAGGGAAGCCACAAGCAGACTGACAACGTTTCTAG
Seq A exon
CAG
Seq C2 exon
GATCAGGTGAGCTGTGTCCAGAAAACCAACGAGAAGGAGTGGAAGGAGGAATGAACGTTTCATTCTCGTTAATAAAGGCATTATCCTAATTATCCTTTGGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000116560-13-21,13-20-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
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:
GCGTGAGTCAATCAAGGAGGG
R:
CCTCCTTCCACTCCTTCTCGT
Band lengths:
100-103
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)