MmuINT0067126 @ mm9
Intron Retention
Gene
ENSMUSG00000070880 | Gad1
Description
glutamic acid decarboxylase 1 [Source:MGI Symbol;Acc:MGI:95632]
Coordinates
chr2:70425380-70425745:+
Coord C1 exon
chr2:70425380-70425459
Coord A exon
chr2:70425460-70425690
Coord C2 exon
chr2:70425691-70425745
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-Gad1:NM_008077:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Rat
(rn6)
No conservation detected
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: