MmuINT0080187 @ mm10
Intron Retention
Gene
ENSMUSG00000030541 | Idh2
Description
isocitrate dehydrogenase 2 (NADP+), mitochondrial [Source:MGI Symbol;Acc:MGI:96414]
Coordinates
chr7:80098136-80098914:-
Coord C1 exon
chr7:80098771-80098914
Coord A exon
chr7:80098273-80098770
Coord C2 exon
chr7:80098136-80098272
Length
498 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TATGCCCGCTCTCCCCACAGTCC
3' ss Score
12.64
Exon sequences
Seq C1 exon
TACAAGGCCACAGATTTTGTGGTAGATCGAGCTGGCACGTTCAAGTTGGTCTTCACCCCAAAGGATGGCAGCAGTGCCAAGGAGTGGGAGGTGTATAACTTCCCTGCCGGAGGCGTTGGGATGGGGATGTACAACACCGACGAG
Seq A exon
GTAAGGCCCTGGCCATCCTCCTCTCCAGCCCATTTCTATCTCTATCTCTGCCTAGTTTGTTATCCTTGCTTCTGTTGGCCTCATTCTCATGCCAGGAAGAGGTAGAAGAGACCACGAGGTCAGAAAAGAGCGCCTCCTTGCCTGGACCAGGATGGGTCATGTGACCGCCTTTGAGCCAATCACTGATGGCCAGGGAGGAAGGGCTCTGATTGCATAAGTTGGAGACAGGTGATCAATCAGACCTAGCAGTAGGCGGCTTAAACAAGCCTGTACCAGCTATAAGGTCTAGGAATTATTAGGTAGAGCTGTTCGAAGTAAAGTTGGCAGCAGGGGTCTGTGCTCCCAGAAGTCTGGTGGGAGAAGATTGGCCAAGCATTCCGTGGTAACAGGAGTCCAGGAGTCTTATGGAGGTGCTGCTGGCCCTGGCCCTGGCCCTGGGACCATGGCAGAGTGGCAGTTTTCAGCCTGGGGGCCATGCTATGCCCGCTCTCCCCACAG
Seq C2 exon
TCCATTTCGGGCTTCGCGCACAGCTGCTTCCAGTACTCTATCCAGAAGAAATGGCCGCTCTACTTGAGCACCAAGAACACCATTCTGAAGGCCTATGACGGGCGTTTCAAGGACATCTTCCAGGAGATCTTTGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000030541:ENSMUST00000107384:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.004 A=NA C2=0.008
Domain overlap (PFAM):
C1:
PF0018015=Iso_dh=FE(11.8=100)
A:
NA
C2:
PF0018015=Iso_dh=PD(10.7=31.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATTTTGTGGTAGATCGAGCTGG
R:
TTGTCAAAGATCTCCTGGAAGATGT
Band lengths:
270-768
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types