HsaALTD0005706-2/4 @ hg19
Alternative 5'ss
Gene
ENSG00000144306 | SCRN3
Description
secernin 3 [Source:HGNC Symbol;Acc:30382]
Coordinates
chr2:175260445-175263170:+
Coord C1 exon
chr2:175260445-175260545
Coord A exon
chr2:175260546-175260717
Coord C2 exon
chr2:175263003-175263170
Length
172 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCTT
5' ss Score
4.72
3' ss Seq
AACATCTGTATAATTTTTAGTTA
3' ss Score
5.41
Exon sequences
Seq C1 exon
GGGAACTTCCGAGATCAAAGGTGACAGCTTCCGGCAACTGATGCCTCCACTGGCCACTCCTCCCTCCGTCCACCTGTCACTTCGGGTAGCTGGGAGGCCAG
Seq A exon
GTGAGGGGCGCGCACGGGGGAGGGGCGTGCATAGTTGAGACAGAAACCCGGAAGACCCAACTGTGGCGCGGCACTGCTTGACCGAGGGGCTCCGGAGCCCAGCTGCACCGGCTGCGGTTTGAGCGCCCAGGGCCGGGGTGCGGGGTGGACCGCGGCGGCCCTTCGACCAAAG
Seq C2 exon
TTAAAAAAAATGGAACCTTTTTCCTGTGACACTTTCGTGGCATTACCTCCAGCAACAGTCGATAACAGGATTATTTTTGGAAAAAATTCAGATAGACTCTATGATGAAGTACAAGAGGTGGTTTATTTTCCTGCTGTAGTTCATGATAACCTGGGAGAACGTCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000144306-0-1,1-1,2-1,3-1-2/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=0.524 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0357710=Peptidase_C69=PU(17.8=90.6)
Main Inclusion 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:
ATCAAAGGTGACAGCTTCCGG
R:
AGACGTTCTCCCAGGTTATCA
Band lengths:
252-424
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)