HsaEX0027431 @ hg19
Exon Skipping
Gene
ENSG00000204136 | GGTA1
Description
glycoprotein, alpha-galactosyltransferase 1 pseudogene [Source:HGNC Symbol;Acc:4253]
Coordinates
chr9:124230121-124262306:-
Coord C1 exon
chr9:124261929-124262306
Coord A exon
chr9:124241344-124241612
Coord C2 exon
chr9:124230121-124230209
Length
269 bp
Sequences
Splice sites
3' ss Seq
GCTGTTTATTCTTTCGACAGGAG
3' ss Score
7.36
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
Exon sequences
Seq C1 exon
CACGTGCAGGCCCGAGAAGGCAAAAGAGGCCCAGCCACTCTCACCGGGGATTTTATCCGCCTCCCCGGCACACACACACTCTCACTCACGCACTCGCTCGCCGGCCTTCCAGCTGTCTGTGTCCGGGGCGGGGACCGGCTTGGCGCAGCCCGCTGTCAGCGCTCGCCGGCTCCTCGCGCCCCTACCCGCTGCGCTCTGCCCAGAGCAGAAGCCCGGCCGGCCGGCCCACGGGCGGGAGGACGCGCCTCCGCTCGGGCGGAGGCGGCGCGGTGGCTGATCAGAGCGCGTAGGGCTTCGCCGGGGCCGGGAGCTGGGCGCGGTCCTGCTCAGCCCAGCTCACCGCGCGCCGGCCCTCGGCGCCCTGGTTCTGCGGATCAG
Seq A exon
GAGTTGAAACCAGCACCTTCCCTTTCTCTGAGTCCTGCCTCCTTCTGCAGAAGGGAGCTCAAAAGAACTTTGTTGTTTTGCCTTTTACTCTGGGGTGAAAGCGGCAGGAGGTATGTGAGATGGTGAAATGATTTGCTTCTGCCATGCTGGGGTCACGGGTGGATCGCCCTAAACTCTCGGTGGCCCCCTCAGTAGTTTTGGAAGAGGACCAAGTCCTTGTCTCTCCAGCAGTGGACCTGGAAGAAGGATGCCGGCTCAGGGACTTCACT
Seq C2 exon
GAGAAAATAATGAATGTCAAAGGAAAAGTAATTCTGTCAATGCTGGTTGTCTCAACTGTGATCATTGTGTTTTGGGAATTTATCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204136_CASSETTE1
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
NonCoding
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
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:
AGCTGTCTGTGTCCGGGG
R:
TGACAGAATTACTTTTCCTTTGACA
Band lengths:
307-576
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)