DreINT0071008 @ danRer10
Intron Retention
Gene
ENSDARG00000093411 | gad1a
Description
glutamate decarboxylase 1a [Source:ZFIN;Acc:ZDB-GENE-070912-472]
Coordinates
chr9:3658481-3658763:-
Coord C1 exon
chr9:3658647-3658763
Coord A exon
chr9:3658546-3658646
Coord C2 exon
chr9:3658481-3658545
Length
101 bp
Sequences
Splice sites
5' ss Seq
GATGTACGT
5' ss Score
6.45
3' ss Seq
TGTGTGTGTGTGTTTTTAAGGGA
3' ss Score
10.81
Exon sequences
Seq C1 exon
GGCTTTGTGCCGATGTTTGTGAACGCAACGGCTGGATCTACAGTGTACGGAGCCTTCGACCCAATCAATGAGATCGCCGACATCTGTGAGAAATACAACATGTGGCTTCACGTAGAT
Seq A exon
GTACGTGTCTGTTGTTATTTCATTAATATACATGAGTGGACTCATTAGGTGGTGAAGAAGCTCATTTGAACTGCGTAAATGTGTGTGTGTGTGTTTTTAAG
Seq C2 exon
GGAGCGTGGGGTGGAGGTTTGCTGATGTCTAGAAAACACAAACACAAGCTCAGTGGCATTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000093411:ENSDART00000140425:10
Average complexity
IR
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(10.1=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(5.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTGTGCCGATGTTTGTGA
R:
TCAATGCCACTGAGCTTGTGT
Band lengths:
178-279
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]