MmuINT1010677 @ mm10
Intron Retention
Gene
ENSMUSG00000070880 | Gad1
Description
glutamate decarboxylase 1 [Source:MGI Symbol;Acc:MGI:95632]
Coordinates
chr2:70587323-70587688:+
Coord C1 exon
chr2:70587323-70587402
Coord A exon
chr2:70587403-70587633
Coord C2 exon
chr2:70587634-70587688
Length
231 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
TCTTTTTATAATAATTATAGGGG
3' ss Score
5.28
Exon sequences
Seq C1 exon
AGTCACTATTCCATAAAGAAAGCCGGGGCTGCGCTTGGCTTTGGAACCGACAATGTGATTTTGATAAAGTGCAATGAAAG
Seq A exon
GTAGGCAGGGCGGAGTGAGCATTAGGCTCCTGATGTATTAAATGTGTTCGTCTGTTAAATCTGCTTTATTGTGTTTAAGCGCTGGCTCCGTACAGTGTGCCAAGCTGCTAATGGTCTGTTGAAAATATCCATTTAAATTACTTTTTGCTGCTGATGAAAAAGGTTTTTTTCCCTCTTGTACAATCTTGTTGACTCTTTATTTTCACTTCTCTCTTTTTATAATAATTATAG
Seq C2 exon
GGGGAAGATAATTCCGGCTGATTTAGAGGCAAAAATTCTTGATGCCAAACAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070880:ENSMUST00000094934:9
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(6.9=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(4.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTCACTATTCCATAAAGAAAGCCGG
R:
TTGTTTGGCATCAAGAATTTTTGCC
Band lengths:
132-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types