MmuINT0067113 @ mm9
Intron Retention
Gene
ENSMUSG00000070880 | Gad1
Description
glutamic acid decarboxylase 1 [Source:MGI Symbol;Acc:MGI:95632]
Coordinates
chr2:70427830-70429227:+
Coord C1 exon
chr2:70427830-70427946
Coord A exon
chr2:70427947-70429162
Coord C2 exon
chr2:70429163-70429227
Length
1216 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TCTCTTTTCTGTCTTTGCAGGCT
3' ss Score
11.86
Exon sequences
Seq C1 exon
GGCTATGTTCCCCTTTATGTCAATGCAACCGCAGGCACGACTGTTTACGGAGCATTCGATCCAATCCAGGAAATTGCGGACATATGTGAGAAATACAACCTTTGGCTGCATGTGGAT
Seq A exon
GTAAGTGTCTCGTTCACACACAGTGCTGTCCTGGGAAGGGGCAGAAACAACCCTGCTTTCAGCCTTGCCTCCAGCTCTTCTGAACACCCTGCCTGACCTTTCCCACCTATGTTAGCTCCTGCTCTTCCCCACTCCTCAGTGAGCTGTTTGTGAACAGTGCATGCCACAGAACCTGGCCACCCTCTGGGATTCAGTCCGTCCTGGCCAATAGTTGTCTTGTGTGGATCCTTCCAGAATCTACTATGATGAGCAGCTGCTTTATTTAGATGAATGGATGCAAAGTAAAATATAACTGACTTCAGATAATTTAAAAAAACTTTCAGAAAAGAATTTCAGAAGATAGTAAGACATGACATACAGGAAATGGCCATGAGTGTGAACACTTAGTCACCTGTGTGCATCCCCCATCTGTGACACTTCTAAGAAAGATGTCCATCTGCTGCATGCAGGAAAGTAAGGATGTATACAGAAGACATGAGCAGCTATGAGAGTAATCTCAAAGTTTCCCAGCAAATATGTGCTCTTACATATGTCATTGGAGCTCTCTCTCTCTCTCTCTCTCTCTCCCTCCCTCCCTCCTTCCCTCCCTCCCTCCCTATTTATTCTCTTACTGGATGTCATTTCTTGGGTATAGACAAAAGGAAAATCTGCCCCACTCTTGGATAAATGGCTAGCAAAGGCCACGCTGACATGCTATGCCAGGCTATTGGGTAAACCAGGTATCGTGGTGCCCAGAGCAGTGTCTCCTATGACTGGGGCTTCTGAGTTTCTCAAGACTTTTTTTGGAAGAGGCAAACAGTTGCTCCTGCCTTCTAAGCAGCCTTCAGTACCTTCATAGCTGTCAGGAGGAGTATATTGGATTCAAACAATCCCTGGCTTGCCCCGGCACTCTGGGCCTTTGGGTTTTGATCCACAGTCACCACAAACTCAACCCACTTTTCCTAGATCACTAAGGCATTCTCTGCAGGAAGTTTATGTAAAGCACTGAAGAGCCCACAGCCTGGGCGACTAGAACTGTCAACGTGGGCTTATTCCATAGGTTATCAATTGTGTAACCTTGACTGGCCTGGAACTTGCTACACAGACAAGTACGGTTTCTAATACATGGAGATCTGCCTGTCTCTGCTTCCCTAGTGTTAGAATGAAAGGTGTGCCTATCTTCATTATGGGGTCTTCAGTGCTACAAGCTCCTCTTGTCTCTTTTCTGTCTTTGCAG
Seq C2 exon
GCTGCCTGGGGTGGTGGACTGCTCATGTCCCGGAAGCACCGCCACAAACTCAGCGGCATAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070880-Gad1:NM_008077:11
Average complexity
IR-S
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(10.1=100)
A:
NA
C2:
PF0028214=Pyridoxal_deC=FE(5.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTATGTTCCCCTTTATGTCA
R:
CTTTCTATGCCGCTGAGTTTGTG
Band lengths:
182-1398
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: