MmuINT0067609 @ mm9
Intron Retention
Gene
ENSMUSG00000038860 | Garnl3
Description
GTPase activating RANGAP domain-like 3 [Source:MGI Symbol;Acc:MGI:2139309]
Coordinates
chr2:32858299-32859462:-
Coord C1 exon
chr2:32859304-32859462
Coord A exon
chr2:32858366-32859303
Coord C2 exon
chr2:32858299-32858365
Length
938 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCTGCCCATTGTCATTGCAGGTT
3' ss Score
8.02
Exon sequences
Seq C1 exon
GAAATCTGCCTGTGTGACTCCCCAGCAGTGATGGCCTTAGTGGATGGACCAACGGAAGAGAGCGACAACCTCATCTGTGTGGCATATCGCCATCAGTTCGACGTGGTAAACGAGAGCACAGGAGAAGCCTTTAGGCTGCACCATGTGGAGGCCAACAAG
Seq A exon
GTGAGCTGGCCACGGTGGGAATGGGCTGGGCATAAGGGAAAGCAAGGGATTGTCTTCTATTTAGACACTGTGATGTGCTTTTAACTCACATCCTCTAGTCAGGTGTGGAGGCTCAGACCTTCCATCCTTGAATTTGTGAAGCTGAGGAAGGAGGATTGTGAGGTCAAAGTTAGCCTGGGCTATATGAGACCCTGCCTCAAAATAGTAATAATAAAAGTACATGCCATGCATCCGTCTCACGTGATGAGCTCCTTAGGCTGGGTCACATGCAGCTGCCTTCAAAGGACAGGGTTTCTGGACTCCAGAAGGACAAGGGATGGCTACAGCCCAGGCTGAGCACCCATGTCTTAAATCTGGACAGTGACAGTCCAGGGTCAAGCATGTCCCAGACCTACTCCACTGGATTATGCTGTCTTTGTGGAAAGACAGAGACAGAAATGGAGACATACTCGTGTTAGCGGCAGAGAACCCTCACTGAGGTCCAGGCAACATGTGGGGAGAACGACTGTGCTGGGTCTGTGGGTCCCACGGCCGATGGACTCCTCTCCTCATAGGCTTCCTTTCACCTCATGGGAGACAGGAACAGTGCTGTCTGCTTGAGCGTTGATGTGAGCACACACGGCAGCCCCTGTGACCCTTAGCATTCTGGGTAAACAGCATTTAGGAACACACAAGCACAGTGCTGGATTCACACCTTCTGGAAAAGCAGGGAAATGGTGTGAGCAACTTCCACCTAGAGCAAAGTGAAAGCAAAGATGTTCCTCTCACACCTGCGGCTCCTTGTCCAGGTAGTGCTGTAGGTCCAGGTGAGGCAAACATGGCTTTGCAGCACCCTGGTTTCTGAGGGCTGAGGCCACTGCTAGACACTCAGAGCTTAAGGAAGTTTCTCCGAGTGGCCCGATCCCACACGCCACTACCGCTGCCCATTGTCATTGCAG
Seq C2 exon
GTTAATTTTGTTGCAGCTATTGATGTTTATGAAGATGGAGAAGCCGGCCTGCTCCTGTGCTACAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038860-Garnl3:NM_178888:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(17.0=100)
A:
NA
C2:
PF0078017=CNH=FE(7.2=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:
AAATCTGCCTGTGTGACTCCC
R:
GTTGTAGCACAGGAGCAGGC
Band lengths:
224-1162
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: