MmuINT0067118 @ mm9
Intron Retention
Gene
ENSMUSG00000070880 | Gad1
Description
glutamic acid decarboxylase 1 [Source:MGI Symbol;Acc:MGI:95632]
Coordinates
chr2:70437666-70440069:+
Coord C1 exon
chr2:70437666-70437755
Coord A exon
chr2:70437756-70438679
Coord C2 exon
chr2:70438680-70440069
Length
924 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CTTCTGTTCTCCATCTCAAGGTG
3' ss Score
9.63
Exon sequences
Seq C1 exon
CCTGAGCACACAAATGTCTGTTTCTGGTACATTCCACAAAGCCTTCGAGGGGTTCCAGATAGCCCTGAGCGACGAGAAAAGCTACACAGG
Seq A exon
GTAAGGATGCGCTCTTTCTGTCTCAGATGCACCACTGCTGCTGTTTGGCTCGCTGGGCGGGCCATCCTGGTGCCACCGAGCTGTTCTCAAAGGGGAAGGACTTAAAAAAGAAAATGTTTCAGGGTCGACTTCTGGGTAATGGGTGTTACAGAGCCATCTTAACTTATACTTCTAGGGTCTGCGTTGACCTCTTTTAAAAAATGGAGTCCCACTTTGGACTGATGTTCTTTGTTACGGAGGCTCTCTTGGAACATTCCACATTCTACTTTGTTGGCTATATTTTACTAAGTGCAAGCCTAGTTGGATTCTGACTCATGTTCTCTGTTGAGTTCTACATCTAGTTTATCCATTCAGAGTTGTTGCCATATTTATGTAACTTGTTAGGCGTGCAACCATGGAATGGATATTTGATAAACTTAGTCTGTGTGCCAGGCAGTATCCTGGACTCCAGGTTATGTACATCAAACTTGCACTCTTTTCTGTCTTTGCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCCTCTTCCTCTTCCTCTTCCTCTTCCTCTTCCTCTTCCTCTCCTTCTCCTCCTCCTCCTCCTCCTTCTTCTTTCTCCTTCTCCTTCTCCTTCTCCTTCTCCTTCTCCTTCTCCTCCTCCTCCTCCTCCTTCTTCTTTTCATTTTATTATCATTGTTCCAAGACTGACTTTCAAGGTCAACTTGCCCAATGATTTCTAAAGGATATGGTGGTTGGGTGGGTTTAGATAGTAGCCATGAAAAACACTTGGTTCTAAAACAGTTTTTGTTGTTCTAGACACATAGTAAAAAGTAAGTCAAGTTGATCTATTAAAAAAAAAAGGTGTGTCAGAGTTGATGCTGAGTTTGGTCTTCTGTTCTCCATCTCAAG
Seq C2 exon
GTGGCTCCCAAGATCAAAGCTCTGATGATGGAGTCAGGAACAACCATGGTGGGCTACCAGCCTCAAGGGGACAAGGCCAACTTCTTCCGGATGGTCATCTCTAACCCAGCCGCCACCCAGTCTGACATCGATTTCCTCATTGAGGAGATAGAGAGGTTGGGTCAGGATCTGTAATCCCTCTTTACAGAACCAGAATCATCGGCCATGCTTGTGCCCCTCTGGTACCCTAGAGCACAGCTCTGTCAGTAGCTGACACATCTAGGCCATCTCACTGAAGGAAATTACAATCTCTTAAAGAATATTTGTCACATTTCACATAAGCTTGTTTGTTAGAGCTAGTGGGGAAATAATGTTCTTTTTAAAAAATTGCACATTAGAAACACAGTATATATGTACAGTTATATATACCTCTCTCTATGTACATGTATGTATAGTGACTGTGGCTTAGTCCTAGACCATAGCATGTTGCTCGTCCCCAGGAAATTAGCCTTACCCCCAGCAATTACTAAGAGGCTAAACCATCTCGCAAGCAACTACAGGGCGGATGGTATCCCTACTGCAGTGTCCTAGGGACCCAGGGAAAGGCTGTTGGTGGGAGGCTACCTCCCTGCTAGAGCTGTTCCCACGTGAAGGGATGATGGATGACAGATGTACCAGTAAATGACAAATGTCACACCCTCCCTGTTAGTACCCTGCTAGGGGAAATAGTAGCAGTCTTTGTCACAATTGTGCTTTGCTGTGTTTTAGAGATTAATCTGTGTAAACTGTGTACATTGCCATTGTCTATCTTTGGGCAGGGGGAAGTGCATATAATGATTAAATTGTATGTCAGTGAGATATCTGCTTATTTATATTCAAATATATACCATGTTAAAGAGACATCTTGTATTTTCTTCCCATTTGTAATGTATCTTATTTATATATTAATGGAGTAAGTTCTGGATACTGTTTATGGTATTTTCGTGCATTTGTGAGCCAAAGAGAAAAGATGAAAATTAGTGAGATTTGCATTTATATTAGAGTGCCCTTAACATAATGATTTGAACATATGTGTACTGTCTGGAAAAGAATTCTGATACTGTACATAGAGTCATGTTATGGAAATCTTGCTTCAGTAGCCTTCGCTCTTCTCTTTCCCCCCTCAGGCTGTATGTCAGATGTTCTCAAAGCTTTTCTAGTAACTGTTGAATAATAATAACTAGATCTCCTGTAATTTTGTAGTAGTATATGACCAATCTCTGTGACTCGCTTAGCTGAAACCTAAGGCAATGTTTCTGAAGACCTCCGATACACTGACCAGTCCCACAAGTGTTTTTGAAGACATGAAACCCACACTGTGCATTTAGGGTGTGCAAGAAGAATATAAATAAAATAAAAAATATTCTCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000070880-Gad1:NM_008077:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0028214=Pyridoxal_deC=PD(2.7=33.3)
A:
NA
C2:
NO
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:
CCTGAGCACACAAATGTCTGT
R:
CAGCTACTGACAGAGCTGTGC
Band lengths:
342-1266
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: