HsaEX0059537 @ hg19
Exon Skipping
Gene
ENSG00000169507 | SLC38A11
Description
solute carrier family 38, member 11 [Source:HGNC Symbol;Acc:26836]
Coordinates
chr2:165793860-165796066:-
Coord C1 exon
chr2:165795960-165796066
Coord A exon
chr2:165794035-165794216
Coord C2 exon
chr2:165793860-165793939
Length
182 bp
Sequences
Splice sites
3' ss Seq
CAGTTTTGTATTCCATGCAGGAG
3' ss Score
6.61
5' ss Seq
TATGTAAGT
5' ss Score
6.69
Exon sequences
Seq C1 exon
TTGATCCTGAAAACGTGTTTATTGGTCGCCACTTCATTATTGGACTTTCCACAGTTACCTTTACTCTGCCTTTATCCTTGTACCGAAATATAGCAAAGCTTGGAAAG
Seq A exon
GAGCCACTAAAAATTTTTAAAGCCATGTTGCATGGTGATGACAGTCATGTATAATACTTGCTCACCTACTTGGGGTGGGTGCGGGGAACCAAGACTGATCTGATAAGAAGTTACCTGCCTGAGATTATCAACACCAAGCTGCAAGAATAACCTACTAAAGAATTAGGCAAAAAAATCTATAT
Seq C2 exon
GTCTCCCTCATCTCTACAGGTTTAACAACTCTGATTCTTGGAATTGTAATGGCAAGGGCAATTTCACTGGGTCCACACAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000169507_CASSETTE3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=0.000 C2=0.000
Domain overlap (PFAM):
C1:
PF0149013=Aa_trans=FE(10.2=100)
A:
NO
C2:
PF0149013=Aa_trans=FE(10.4=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
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:
TTGATCCTGAAAACGTGTTTATTGGT
R:
TGTGTGGACCCAGTGAAATTGC
Band lengths:
186-368
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)