MmuINT0067580 @ mm10
Intron Retention
Gene
ENSMUSG00000026867 | Gapvd1
Description
GTPase activating protein and VPS9 domains 1 [Source:MGI Symbol;Acc:MGI:1913941]
Coordinates
chr2:34678433-34681707:-
Coord C1 exon
chr2:34681635-34681707
Coord A exon
chr2:34678631-34681634
Coord C2 exon
chr2:34678433-34678630
Length
3004 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATA
5' ss Score
7.96
3' ss Seq
TTGTCTACCATCTTGCTTAGGTT
3' ss Score
7.48
Exon sequences
Seq C1 exon
GGTTCTGCATGAACATATCCAGAGATTATCTAAAGTAGTGACTGCAAACCACAGAGCTCTGCAGATCCCTGAG
Seq A exon
GTAATACGGCTTGTGTGTAGCGGGTGGTGGTGTACTTGGAAAGTTAACATTTCAGCAAGGCCCCGGGTGCCCCAAGACAGAAGCACCGTTTCCCGAGGTGCTCGTCCCTCTCATTGTCACTGTCCCCAGGGAACTTCTGGGGTGTAACTTCCTCTGTGTAGAAAAGGACCTCAGTGGAGAAGTGGGGAGAGCCCATAGTAGGGTACCCCTTAAAGTATCTCTGTTCCCAAGCACAGCTTCTGCCCCAGCTCTGCCCTCCTGGGCAGTGTGCTGTCCCTGAGCAGCTTCAGGCTGGGCTTTGCAAAGGTGTCCCTTTCTGATGCCGACAAGAACTGTTCCAGAGGGAAGGCTCAGTCTGCATGGCCTCAGGACAAGTGCTTGCTTGGGTGGGGCCAGCTTTTTGGAGTTCCTGTTCTTTAAAGATTCCTTATGGTGAAACATTGAGTACTGCAGGGTTTTACAGTTTCTTTGGTATGGGTGTCTTAGTCAGGGTTTCTATTCCTGCACAAACACCACGACCAAGAAGCAGTTTGGGGAGGAAAGGGTTTATTTGGCTTACACTTCCATGCTGCTGTTCATGACCAAAGAAGTCAGGACTGGAACTCAAGCAGGTCAGGAAGCAGGAGCTGATGCAGAGGCCATGGAGAGATGTTCTTTGCTGGCTTGCTTCCCCTGGCTTGCTCAGCCTGCTCTCTTATAGAACCCAAGACTACCAGCCCAGAGATGGCACCACCCACAAGGGGCTGAAATTTCCCCCTTGATCACTAATTAAGAAAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCTCAACTGAAGCTCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGTTGACACAAAACTAGCCAGTACAATTGACCCCTTGTCAACTTGACACACAAACACATCACTAGTAAGCCTCAACCCTTACATTCTTATTCATCCCCAAGATCTAAATAACTTTAAAAGTCCCACAGTCTTTACATATTCTTAAAATTACAATTTCTTTAAAATATCCATCTCTTTTAAAATCCAAAGTCTTTTTACAATTAAAAGTCTCTTTAACTGTGGGCTCCACTAAAACAGTTTCTTCCTTCAAGAGGGAAAATATCAGGGCACAGTCACAATCAAAGCAAAAATAAATCTTCAACCGTCCAATGTCTGGGATCCAACTCAGGATCTTCTGGGCTCCTCCAAGGGCTTGGGTCACTTCTGCAGCCATGTCCTTTGTAGCACATGTGTCGTCCTCTAGGCTCCAGATCCCTGTACTCCACTGCTGCTGCTCTTGGTGGTCATCTCATGGTACTGGCATCTCCAAAACACTGCATGACCCCTTCAGTCCTGGGCCTTCAATTGCAACTGAAGCTGCACCTTCACCAATGGCCTTCCATGGCCTCTCACAGTGCCGAGCCTCAGCTGCTTTGCGTGACCCCTTCATGCCTTCAAAACCAGTACCACCTGGGTGACCCTTACATATTACCAAGTCCCACTGTAGCAGGAGTACAACCTTGGCTATCTCTGGTACACAGCCTCTTTCTGCTTTCAGAAAACACTTCCCAGAAGATGTCACCTCAATGATGCTGGTCTCTTCTTAATCACCACTAATTTCTTAGCTCCAGCTAACCAGCATCAATAGTCCCAGTAATGCAAAGTTTTTGCTTTAGTAGTTCTGGTATCTTGTTAACCACAGCTGATTCCTCAGCCCCAGCTAACCAGAACTACAAAATCTTCACAATCAAAACAGCAATGGCCCTGAAAAGAGTCTTTAATTTTCCCTCTGAAATTTCACAAACCAGACCTCCATCTTGTGCACTGTTGTCAACATTATCTTCCAAGCTCCTACACAACATCTGACAGAGCTCTTAACAACGAATAGATCTTCAAGCCCAAAGTTCCAAAGTCCTTCCACAGTCCTCCCCAAAACATGGTCAGCTTGTCACAGGAATACCCCACTCTGCTGGTACCAATTTGTCTTAGTCAGGGTTTCTATTCCTGCACAAACATCATGACCAAGAAGCAGTTTGGGGAGGAAAGGGTTTATTTGGCTTACACTTCCATACTGCTGTTCATCACCAGGGAAGTCAGGACTGGAACTCAAGCAGGGCAGGGAGCAGGAGCTGATGCAGAGGCCATGGAGGGATGTTCTTTACTGGCTTGCTTCCCCTGGCTTGCTCAGCCTGCACTCTTATAGAACCCAAGACTACCAGCCCAGAGATGGCACCACCCACAAGGGGCTGAAATTTCCCCCTTGATCACTAATTAAGAAAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCTCAACTGAAGCTCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGTTGACACAAAACTAGCCAGTACAATGGGTTTTTTGTTGCTTGGTATTTGCTTGCTTGTTTGTTTGTTTAAGACAGCCCCTTACCCCTTATACACAAGGTCTCTCTTATTCTATAGCCCTCACTATCCTGAAACTCCCTATGTAGACCAAGCTGGCCTTGAATTCATAGAGATCCTTCTGCCTCTACCTCAAGAGTAGAGAGAGATTCTTTCAAGTCCTCGCTGACCTCAAGCTTGCTATGTTGCTGAGGCTGGCCTTAAGCCCCTGACCCTCCTGCCTTGATCCCCCAAAGTGCTGTGATCCCAAGCTTTCACCACCGTCCTGGGCTTTGACTTTGTTTTTGTAGAAGCACTGCAACAGGGATCCTAGTGATGTCAACATTACCTTCTTGCTGCTGCTTGTCTGTGCTTCTGAAATCAGCTAAATGGAAAATCTCATCCCAGCTTTGTAAGAAACTCACAGGGAGGTTGTGAGCTCCAGGCTCTGTGGTATATATACACCTCTGCCCAATGGCTAGGCTGTTGTGTTTTGAAATAGGGTTTATCTTGGGAGGCTGGGAAAAAATGTCCCTTGTCAGCTTGCTGTGACAGGTACCGTGGCTGCTATGCAGATTGCTGTTGGATTCATGATCTCTATGTTGTCTACCATCTTGCTTAG
Seq C2 exon
GTTTATCTCCGTGAGGCACCATGGCCATCTGCACAGTCAGAAATCAGGACAATAAGTGCTTACAAAACGCCCCGCGACAAAGTGCAGTGCATCCTGAGGATGTGCTCCACCATCATGAACCTCTTGAGCCTGGCCAACGAGGACTCTGTCCCCGGGGCAGATGACTTTGTTCCTGTGTTGGTGTTTGTGTTAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026867:ENSMUST00000102800:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0220413=VPS9=PU(56.3=87.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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