MmuINT0067127 @ mm9
Intron Retention
Gene
ENSMUSG00000026787 | Gad2
Description
glutamic acid decarboxylase 2 [Source:MGI Symbol;Acc:MGI:95634]
Coordinates
chr2:22477847-22479015:+
Coord C1 exon
chr2:22477847-22478258
Coord A exon
chr2:22478259-22478955
Coord C2 exon
chr2:22478956-22479015
Length
697 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TCCCTGCCTGGCGATTGCAGCGA
3' ss Score
6.48
Exon sequences
Seq C1 exon
TCCCTAAAAATCTCTTGGGCCCTTTCCACTTTCCAATCTCCAGACTGCGAGGATCACGGCTACTCCCCCCATTTAACCTCGGCGGCGCAGAGCACAGCAGCGCGTCCCTGCGCCCTGACTGGAACATACAAACACGCACGAGCACTGGCATACGCAGACAGCACGTTTCCTGTCCCTGTGTGACACCCACCCTCGTCGCGCTGCCGCTCCAGCCCTCGCGCGGTGCCCTTCTCCCGCCACACGTACTCGCACACGCACGCACTCTCGTGCAGGGTCGAGGCAAAGGCAGCTTGCCACAGCCACTTGGAGGCGACCAGCGCCAGTCTAGCAGAACCCATGGCGTCTCCTGGCTCCGGCTTTTGGTCCTTCGGATCTGAAGATGGCTCTGCGGATCCTGAGAACCCGGGCACAG
Seq A exon
GTAGGAAAATCAGGACCTGCAGCGGGAGAGCTTTGTGGGTGGTTTAGGGTTTGCAGGGCTAGGCTGATCATCAAAGCTTTGACATCTGCAACAGGAAACTTATTCGGGCGCTTCGCCCGGCTCTCTGGGTTAAGTCCGTAACTGTGTGAGAACACCAACCCCCCCCCCCACCCAGTCCTTTGTCCCCCAGGGAAAAAGCCCAGGGTTGTCTAGGCCCCTTCCCCTAAACATAGGCTCCTGAAAGACTGCAGCGTCTGCGGGAGTCAGAAATCAAAGATCTAGGCTTTGCCTCGGGACGTCTAGACCCTGGGCAGGGAAAGACAAAATGGGAGCAGGAAAGAGTTTGGGGTCTGAAAGGCAAGCGCGGTGAGAAACAAACAGCCTCGGGTTTAGGAAAGGCAGCCCAGGTGAGGGCAGGGAGAGTCTGGAAACCCGAGAACCTGGCGAACAAAGTGCAAAGGGCGGCGTTGTGAGCTGCTTTCTTTCTGGGACACCGCAAGGAAAGGGCTGGCCCCGGCGTCAGATTCCCTCGGACTCCCCCACCTGCTGAAAGCAGAGTCGCTAGCTGGTGGCTGCTTCGAGTTTGGCGCCGGGCCCCCAGACTCTGGACTTAAAGACCTGGTTCACTTGGAACGAAAATTCTCACTCGCCCGTCTGTTTTCTTTCCGATTCGCTTTTCCCTGCCTGGCGATTGCAG
Seq C2 exon
CGAGAGCGTGGTGCCAGGTGGCCCAAAAGTTCACGGGCGGCATCGGAAACAAGCTGTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026787-Gad2:NM_008078:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATACAAACACGCACGAGCACT
R:
GCACAGCTTGTTTCCGATGC
Band lengths:
346-1043
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: