MmuINT0067568 @ mm9
Intron Retention
Gene
ENSMUSG00000026867 | Gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:MGI Symbol;Acc:MGI:1913941]
Coordinates
chr2:34560156-34561659:-
Coord C1 exon
chr2:34561540-34561659
Coord A exon
chr2:34560234-34561539
Coord C2 exon
chr2:34560156-34560233
Length
1306 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GGTGTGCCTTCTTGTTGTAGGCG
3' ss Score
8.67
Exon sequences
Seq C1 exon
GTATAAGTGCTACATCGGAGGATATTCCCAATAAGATCGAAGACCTGAGATCTGAGTGCAGCTCTGATTTTGGGGGCAAAGATTCTGTAACTAGTCCAGATATGGATGACATAGCCCATG
Seq A exon
GTAAGTTGTAGGAGTGAGAATGGCTTTTTAAGGTAATTATAGAATGTCAGAACTCAGATAGAGGCCAGGGAATATCTATGAGTTTGAGACTTGCCTGGTCTACATAGTGAGTTCTAGGTCAGCCAAGTCTACATAGTGAGTCCTGATCCAAAAAACCAAAAACGAAAGAAAAAGGAGAAAAAAAAATCCTAAAACAACCAAAACAAAGCCCTAAAAATCAAAGTGGGGCATAACTTGTCAATGTGTTCTTGGGGACTTAGATGATCATATTCTAAATTTGGATCAGTTAGAACTACTTCTAGAGGGGGCTGGAGAGATGGTTCAGCGGTTAAGAGCACTGACTGTTCTAATGAAGGTCCTGAGTTCAAATCCTAGCAACCACATGGTGGTTTACAACCATCTGAAATGACATCTGATGCCCTCTACTGGTGTGTCTGAGGATAGCTACAGTGTACTTACATATAAATAATAATAAATCTTTAAAAAAAAAAAAAAGGCCAGGCAGTGGTGCTGCAAGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGAGGCAGAGGCAGGCGGATTTCTGAGTTCAAGGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGCCAAGATCTACACAGAGAAACCCTGTCTCAAAAAAAAGGCGGGGAAAAAAAAGAACTACTTCTAGAAATCTGTTATAAGGAAATCCGTGAGTGGAGAAAGTTTTAGTCTCTGTATACTTACCTATTTTAATATTTCTAGTTGTGTTAAGACATGCTTAGTTAGGGTTATCTTTTGGGGAGGGGGAGTTCTGTAGTCTAAAATAGTACATTTAGAAATTAGAGTCAATTTCATGGCATTATATATTCATTTCACTCATAGATTTTTTTTTTAAATCAAGACATTTGCTGAAAGCAATATTAGACTTTCAAATTCTATAGTTCTCCACCTCTTCTTTAGATAGTATTTCTTGTTTTTATGCTGGGAGAAGTAAGTCTTAGAAAAGCTGAGCTCACTTTAAATATGTGTGAGTTCTCATGGAGGCTGTCTTCACACTAACCATAATAATATTTGTCCATTAGGTAATAAGCAGGTAGATGCTGCTCCCTCTAAGTGGAGTGAAAAATCCCTACATGCAGATTAAAATGCAGGGCAATCAGAATTTGATACTTATTGGTGTCATTTATTGCTGGTATGCTTCTCAAGTTCTAATTGATTAAGAGATAAAAGCTGTGGGCGAGTCTCAGCTCCTTCTTCACTATGTGGAACGCTGTCTGCATGTGGCTGATCTCATGGTGTGCCTTCTTGTTGTAG
Seq C2 exon
GCGCTCATCAGCTGACCTCTCCTCCCTCTCAGTCAGAGTCTCTGCTTGCCATGTTTGATCCACTGTCCTCACATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026867-Gapvd1:NM_025709:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.976 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATAAGTGCTACATCGGAGGAT
R:
CTTCATGTGAGGACAGTGGATCA
Band lengths:
198-1504
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: