RnoINT0063564 @ rn6
Intron Retention
Gene
ENSRNOG00000000007 | Gad1
Description
glutamate decarboxylase 1 [Source:RGD Symbol;Acc:2652]
Coordinates
chr3:56886868-56887233:+
Coord C1 exon
chr3:56886868-56886947
Coord A exon
chr3:56886948-56887178
Coord C2 exon
chr3:56887179-56887233
Length
231 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TCTTTTTATAATAATTACAGGGG
3' ss Score
5.46
Exon sequences
Seq C1 exon
AGTCACTATTCCATAAAGAAGGCTGGGGCTGCGCTTGGCTTTGGAACTGACAATGTGATCCTGATAAAGTGCAATGAAAG
Seq A exon
GTAGGCAGGGTGGAGCAAGCGTCAGGTTCCTGATGTAGTAAATGTGTTCATCTGTTAAATTTGCTGTATTGTGTTTAAGGATTGGCTCCGTACAGTGTGCCAAGCTGCTAATGGTCTGTTGAAAATATCCATTTAAATTACTTTTTGCTGCTGCTGAAAAAGGTTTTTTCTCCCCTTGTATAATCTTGTTAATTCTTTATTTTAACTTCTCTCTTTTTATAATAATTACAG
Seq C2 exon
GGGGAAGATAATTCCAGCTGATTTAGAGGCAAAAATTCTTGATGCCAAACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000007:ENSRNOT00000000008:9
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(13.4=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(4.8=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:
AGTCACTATTCCATAAAGAAGGCTGG
R:
TTGTTTGGCATCAAGAATTTTTGCC
Band lengths:
132-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]