HsaEX0059540 @ hg19
Exon Skipping
Gene
ENSG00000169507 | SLC38A11
Description
solute carrier family 38, member 11 [Source:HGNC Symbol;Acc:26836]
Coordinates
chr2:165795960-165812035:-
Coord C1 exon
chr2:165811719-165812035
Coord A exon
chr2:165802103-165802237
Coord C2 exon
chr2:165795960-165796066
Length
135 bp
Sequences
Splice sites
3' ss Seq
AATTGATGTTCTTGCCACAGACT
3' ss Score
7
5' ss Seq
TAGGTAAGT
5' ss Score
9.66
Exon sequences
Seq C1 exon
AGAAACATCCTGCAGCATCTCCGTCTCCGGAGGAAAAATACATTTGTCTGGGCGAACTCCGGTGGAAAAGCGCCCCAGGCTGCCACAGCCTAGAGATCTTGGGGCTGCAGCCCTCGCGGCCTGCCGAGGGAGCAGGGGGCGCCCGTGGAACTGGCTCCCTGCAGCTCTGCGGCTACACGCGGACCTCGGCTGTGTGCGAGGTGGCGGAGGAGGCTGGCCGGGTGCGAATCCGTACCCAGCCCCAGCATCTTCCACCTGCTGAGGACCACCGCTCAGCCATGGGCTACCAGAGGCAGGAGCCTGTCATCCCGCCGCAG
Seq A exon
ACTTTTCCCTTGTTTTATTGATAAAAGGAGGGGCCCTCTCTGGAACAGATACCTACCAGTCTTTGGTCAATAAAACTTTCGGCTTTCCAGGGTATCTGCTCCTCTCTGTTCTTCAGTTTTTGTATCCTTTTATAG
Seq C2 exon
TTGATCCTGAAAACGTGTTTATTGGTCGCCACTTCATTATTGGACTTTCCACAGTTACCTTTACTCTGCCTTTATCCTTGTACCGAAATATAGCAAAGCTTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169507_MULTIEX1-4/5=C1-C2
Average complexity
C3
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.577 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
PF0149013=Aa_trans=FE(13.2=100)
C2:
PF0149013=Aa_trans=FE(10.2=100)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGATCTTGGGGCTGCAGC
R:
AGTGGCGACCAATAAACACGT
Band lengths:
258-393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- Genotype-Tissue Expression Project (GTEx)
- 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)