MmuINT0067125 @ mm9
Intron Retention
Gene
ENSMUSG00000070880 | Gad1
Description
glutamic acid decarboxylase 1 [Source:MGI Symbol;Acc:MGI:95632]
Coordinates
chr2:70425180-70425459:+
Coord C1 exon
chr2:70425180-70425295
Coord A exon
chr2:70425296-70425379
Coord C2 exon
chr2:70425380-70425459
Length
84 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CAAGCATCCCTTTGTTGCAGAGT
3' ss Score
6.61
Exon sequences
Seq C1 exon
GGGGAGCCATATCCAATATGTACAGCATCATGGCTGCTCGTTACAAGTACTTCCCAGAAGTGAAGACAAAAGGCATGGCGGCTGTGCCCAAACTGGTCCTCTTCACCTCAGAACAC
Seq A exon
GTGAGTTGGGGGCTCTGGCGTGTGGGTTGTGATGGTTTTCAAGGGACTATGCAACTTTTAACCTCAAGCATCCCTTTGTTGCAG
Seq C2 exon
AGTCACTATTCCATAAAGAAAGCCGGGGCTGCGCTTGGCTTTGGAACCGACAATGTGATTTTGATAAAGTGCAATGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070880-Gad1:NM_008077:8
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(10.1=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(6.9=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:
GGGAGCCATATCCAATATGTACAGC
R:
ACATTGTCGGTTCCAAAGCCA
Band lengths:
171-255
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: