MmuINT0067605 @ mm10
Intron Retention
Gene
ENSMUSG00000038860 | Garnl3
Description
GTPase activating RANGAP domain-like 3 [Source:MGI Symbol;Acc:MGI:2139309]
Coordinates
chr2:33006798-33007347:-
Coord C1 exon
chr2:33007249-33007347
Coord A exon
chr2:33006915-33007248
Coord C2 exon
chr2:33006798-33006914
Length
334 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCCG
5' ss Score
5.74
3' ss Seq
TTCCTTCTCTCTATCACCAGGGA
3' ss Score
11.23
Exon sequences
Seq C1 exon
ATGACCTCCCATCCGTGCCCGTGTTTGACAGAACTCTACCTGTGAAGCAGATCCACGTGCTGGAGACCCTGGACCTTCTGGTTCTCAGAGCAGACAAAG
Seq A exon
GTGCCGCCCCTCAGATGGCTGCTCCAGGAAGAGCAAAATGGCGGGTGACCCACTGCAGCCAACCCGCAGGGTCGCTGGGTCTGGGGCTGTGGCTCATATCACTGTTCCTCTCCCTGGTGTCAGTGCTGTGGTGCTTTGGTGGTTCACTTGTGGGGATAGCGGAGGGATAGAGAGTTTCATTCTCCCACGATTGTGTAGAGCAAGTGTGCTATGGGGTAGATGCAGTTGCTTGCATCCCAGAACCTCCCAACCCTGGTTTGTGTATCTGACCTGGGAGTCCCAACAGGTCATCTCACTTCGCTATCTGATCCCTCTTCCTTCTCTCTATCACCAG
Seq C2 exon
GGAAAGACGCCCGCCTCTTTGTCTTCCGGCTCAGTGCTGTGCAGAAAGGCCTTGATGGCAGGCAGACTGGAAGGAGCAGATCTGACTGCCGAGAAAACAAGCTGGAGAAAACCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038860:ENSMUST00000102810:19
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=0.275
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(10.8=100)
A:
NA
C2:
PF0078017=CNH=FE(12.7=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:
ATGACCTCCCATCCGTGCC
R:
CTTTGGTTTTCTCCAGCTTGTT
Band lengths:
216-550
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