MmuINT1010717 @ mm10
Intron Retention
Gene
ENSMUSG00000026867 | Gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:MGI Symbol;Acc:MGI:1913941]
Coordinates
chr2:34754266-34755232:-
Coord C1 exon
chr2:34754978-34755232
Coord A exon
chr2:34754560-34754977
Coord C2 exon
chr2:34754266-34754559
Length
418 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
CTTCCACCCGTCTTCTCTAGCAC
3' ss Score
8.83
Exon sequences
Seq C1 exon
ATTTTAAAGGGCTGTCAAGTGGGAACCAATTCTCCTTGCTTCCAGGCAGAATAACTACCTGCAAAGGGAGGAAAGACAAGGGAAGCAGATTTCAGCTCAGCAGAAGGCAGAACTTTCTAACATTTAGAGCTGTGCAACAGAGAGGAGCAGGCTGTACTCCTGAGAGGTAGTGAGCTGATACTGGAACATCCGAAACAGAAGTGAGACGTGGAGGCCATTCCTGCTTGGGTGGGAGCTGCACCGATGACCTTTAAG
Seq A exon
GTATGTTCTAGCTCTAAGGTTTCTGGGACTGTTCACTTCTGCTAACTTGACGCGTCCTTTCATTTTTTTTTTTTTTTTGAAAAAACAAAACCGACCTAAGCCTATTTAATGTAACACAGTTTACAGTTTATTTAATGTAATGTTATTTTTAAATAACACAGTTACAATAAAAATCGACAAAACGAGAAGTGGGAAATTATATTTATAAGTTAAAAATGAAGATACCGTCCAATTGGCATAGCTTTTAAGTGAAAGGGGAAGAGCGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGCTGGCTATTGGATGATGTTCCGAGCAAGAGAGGAGTGTCATTTTTCTTCCACCCGTCTTCTCTAG
Seq C2 exon
CACCAGGTACACGGAGACGTGAGGGCGGAGGATCGGCGTACAGGTCCTGGCAAGGCGGTTCGCGACCGGGAGCGGAAGGGCGGCCGTGGTCCGGACCACCGATCCCAGGGGCCCCCGCGGCGCCGCGCACGCGCACTGCTGAGGGGGCAGCGCCGCCGCAGGAGGCAGGGAAACCGACTGGCGATCTGTGGCGGCGGCTGGGCGGCGGTGGCAGTTCGCAGCGAGGGCGACGGCTCCGAGGCCGAGAGGCAGTCCAGCGAGGACCTGGGCGCCGTCCTCCGCATGACCTCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026867:ENSMUST00000102800:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATTTCAGCTCAGCAGAAGGC
R:
CACAGATCGCCAGTCGGTTTC
Band lengths:
358-776
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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