MmuINT0067573 @ mm9
Intron Retention
Gene
ENSMUSG00000026867 | Gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:MGI Symbol;Acc:MGI:1913941]
Coordinates
chr2:34548893-34551128:-
Coord C1 exon
chr2:34551006-34551128
Coord A exon
chr2:34549023-34551005
Coord C2 exon
chr2:34548893-34549022
Length
1983 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATA
5' ss Score
4.58
3' ss Seq
TGGGGACTGGTTTTGTTTAGAGG
3' ss Score
2.25
Exon sequences
Seq C1 exon
ATGAGCCCAGCCCTAGGCTCAGTGCTCAAGCTCAGGTTGCTGAAGATATTCTGGACAAGTACCGGAATGCCATTAAACGGACCAGCCCCAGTGAAGGAGCAATGGCAAATGATGAGAGTGCAG
Seq A exon
GTGATAATCACAATAGATCTGAACCATGATAGTTTATCTTAGAGATGAGGTAACTCAAACTCACATAGCCTTTAGAATAGGCTGTCCAGAGGAGCCACAGTATTTGAAAATGATAGCTTTTGTAAGCATGTCAGGTTAGTGTATCCCTCTCTACAGCTTCCCACTAAGTGTGGGCACCCGAGATGTTCAGATGGTTTAGGGTCACCTAATGAGGCTGGGGTGACAGCCCAGAGCACCTTGGTTTATGTTTTAGTGAGAGGGAACCCTCCCCCCAGCCCCCTACCCACCCACCCCACCCCATCCCCCCTTTTCTTCCCCCCCTGTTTAGAAAAGTGAGATTTGATGTAGTTATGGACTTTTAGCATAGCTGTGGCGGCCAACTCAGGCTAAGGTACTGTACCTTGTTGCTTGTTATGTCTTTTCTACAGCGCTTACGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCGGGATACTGACTATCTGTCATAAAAATACAGAGTCCTCAAGATATATTAAGGAAAAGCAAAAGCATGTAAAAGCATGAGCAGTTTGTTCAATCTGTCCCTTCCTGTGCACTGAGCAGGAACTTGAGCTGCTCTGAGGAGGGCGTGCGCCTGAGGCTGAAGAGGGACTGAGGGCACCGATGCTTCCCTTTCTTAGGGCTAAGGTGCAGACAACTCTACTCTGGAGGGCAGGCTTTCCCTGAAATCAGAATCCTCCTGCCTGTCTCCCAAGTGCCAACTCTCAGTGCAGTGAAGGGTATTAAACTCTATATTTAGACTTGCCAGTTACCAATATTTTGTCATAATTTCCTATACGAACAGTATTTATGAACATTTTATTCCTTTTGACTTAAAGGCGTTATTTTTCTTTTTCTTTCTTTTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTTTCTTTCTTCCTTTCTTTCTTTGAGACAGAGTCTCATATAACCCAGGCTTGTATCAAACTAACCTTAACAGTTATTTACTTTTTTTGTTGTTGTTGTTTTTTAAGATTAATTTTACTTTATGTGTATGTGTCTTTTGTCTACATGTGAAGTCTGTTCAGGACATGTGTGCGGTAACCATGAAGGTCAGAAAAGGATGTTAGATCTCTGGAACTGAAGTTACATACAGTTGCTAGGCACCATATGTGTACTCTGAACCCATCCTGGGTCCTCTGGAAGAGAAGCCAATGCTCTTAACATCTGGGCCATGCCTCCATCCCCAGCCTTGAACTCTTGTCTTCACTTTCACTACCTGCCTTCACTTCAACTGTTAGGGACACATCACCACACCTATTTGATTTGGTGCTGGGAATAGAATCCAAGGATTCTCTCATGCTAGGCAAGCCCTGACTTTTTCTCATGCTACTGACTGAGGCTCAGGCCCCTTGACTTTATATATGTATATATTAACTGGCTAATTAAAAACATAACAGATGTGGGAACCACAGACCTGGCCTCGATGTGTTTTGAACTAGGCCCTGGCTGTGTCTTAGGTGGGGAGGGCTTTGTTGAGGAGACTCAGGAGACATGAATGAGTGTCTATCCCAGCACTTGGCAGGAGTCCATGTCTCTAAAGTGAAGCTATTGTTAAAATGCTTTTTGAGGCTCTCAGTTCTGTGGTTCAGTGATTCTGAACTTTATTAAGTAAATATGAACTTTATTAAGTTATTCCAAATTGGATACTGTGGCAAGAAGTACAGTTTTTTCTGCTCTAGTATCTGATATCTTGATATATGGCCCTGGCCATTGATAATCTCGTTATATGTCTGAGATTTGTTTTCTTTTTCCAAGAACTGTTATTACAAGACAAACTGACTTTTGATTAAATTTCTCTGATGCCTGCTAGTACCCGAAATTTCCACATTAACTAGGCTGTCCTCTTCTTGGGGACTGGTTTTGTTTAG
Seq C2 exon
AGGTCATGGGTGATGGTGAAAGTGCCCACGACTCTCCTCGTGAGGAAGCACTGCAGAACATCTCAGCCGACGACCTCCCGGACTCCGCCAGCCAGGCAGCCCACCCTCAGGACTCTGCTTTCTCTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026867-Gapvd1:NM_025709:19
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.906
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
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTAGGCTCAGTGCTCAAGC
R:
AGAGAAAGCAGAGTCCTGAGGG
Band lengths:
238-2221
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: