MmuINT0067622 @ mm10
Intron Retention
Gene
ENSMUSG00000038860 | Garnl3
Description
GTPase activating RANGAP domain-like 3 [Source:MGI Symbol;Acc:MGI:2139309]
Coordinates
chr2:33034031-33034785:-
Coord C1 exon
chr2:33034710-33034785
Coord A exon
chr2:33034130-33034709
Coord C2 exon
chr2:33034031-33034129
Length
580 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
ATCTGTGCCTTTTCTTGCAGAAA
3' ss Score
11.16
Exon sequences
Seq C1 exon
GGCTCTGTGAATTTCAAATTTGGGGTTCTTTTTGCCAAAGATGGGCAGCTCACAGATGACGAGATGTTCAGCAATG
Seq A exon
GTGAGCAAGCATCCCCTCTGTACCCCCGCCAAGGGCAACCCTGCCTTTGACTGCCTTTCCCGCCGCTGAAACCAAATGTCTGCTTGGGCTGGAATCTCCAATACCAGGAGGCAGTTTACGGAATTTTGTAAGGTGGTTCTTGATCAGCTTCAGTCATATGCGTACGAGTCCCTGCAGTGGGCACTGGAGAACATAGCCAGGGGTGTGGGGAACACACACAAGTTTAGGAAATCTGGTTCTACAGAGTGCAAGATCTTCCCTTGCTGCTTCTGGCTGAGTTACTATAAAGACAGTATCATCTTCCTATATTTGTGTCTTTCATGTTACAACCCTGTCTATCATTGGGCAGAGCAACAATAGCCCCTTCATTCCTCAATACTGCATGCCCAAGGTCTGGTTCACCTGTCTGTTTGCCTTCCCTTGGGTTCCTGAAAATTACAAGACTTCCTTATAGCCCTTGGGTAAAAAGTGATGTGACCTCATGCTTTGATACTGTGCACATCAACAGCACCATTATCTGTGACTTCTTTATGGTTAAAAAATGAGGACCAGAGATTGACATCTGTGCCTTTTCTTGCAG
Seq C2 exon
AAATTGGAAGTGAAGCTTTTCAAAAATTTTTAAATCTCCTCGGTGACACCATTACTCTAAAGGGCTGGACAGGCTACCGTGGCGGTCTGGACACCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038860:ENSMUST00000102810:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.006
Domain overlap (PFAM):
C1:
PF0214510=Rap_GAP=PU(2.1=15.4)
A:
NA
C2:
PF0214510=Rap_GAP=FE(17.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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