HsaINT0067232 @ hg19
Intron Retention
Gene
ENSG00000128683 | GAD1
Description
glutamate decarboxylase 1 (brain, 67kDa) [Source:HGNC Symbol;Acc:4092]
Coordinates
chr2:171702216-171702573:+
Coord C1 exon
chr2:171702216-171702295
Coord A exon
chr2:171702296-171702518
Coord C2 exon
chr2:171702519-171702573
Length
223 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TCCTTTTCCAATAATTATAGGGG
3' ss Score
6.7
Exon sequences
Seq C1 exon
AGTCACTATTCCATAAAGAAAGCTGGGGCTGCACTTGGCTTTGGAACTGACAATGTGATTTTGATAAAGTGCAATGAAAG
Seq A exon
GTAGGCAGGGGAGGGTGAATATTAGGTTCTTGATGTATTAAATGTGTTCATCTGTTAAATTTGTTTTATTGTGCTTAAGGACTGGCTCAGTACATTGTGCCAAGCTGCTAATGGTCTGTTGAAAATATCCGATTAAATTGCTTTTTGCTGCTGCTAAAGTTTTTTTCATGTGCAATCTCATTGACTCTTCATTTTAATTTCCCTCCTTTTCCAATAATTATAG
Seq C2 exon
GGGGAAAATAATTCCAGCTGATTTTGAGGCAAAAATTCTTGAAGCCAAACAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000128683-GAD1:NM_000817:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0028214=Pyridoxal_deC=FE(11.2=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(4.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACTATTCCATAAAGAAAGCTGGGG
R:
TTCTGTTTGGCTTCAAGAATTTTTGC
Band lengths:
132-355
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)