MmuINT0067614 @ mm9
Intron Retention
Gene
ENSMUSG00000038860 | Garnl3
Description
GTPase activating RANGAP domain-like 3 [Source:MGI Symbol;Acc:MGI:2139309]
Coordinates
chr2:32845026-32846299:-
Coord C1 exon
chr2:32846084-32846299
Coord A exon
chr2:32845153-32846083
Coord C2 exon
chr2:32845026-32845152
Length
931 bp
Sequences
Splice sites
5' ss Seq
TAGGTAACC
5' ss Score
6.66
3' ss Seq
GGTTTTCCTCTATAATGTAGGCC
3' ss Score
6.15
Exon sequences
Seq C1 exon
GTGAAATTCAGTCTAAAAATCTGTACAAGATTCCACTTAGAAACCTTGTGGGCAGAAGCATCGAGCGACCTCTGAAATCACCCTTAGTCTCCAAGGTCATCACCCCGCCCACCTCCATCGGCCTTGGAGTCGCTGCCATTCCTGTCACGCATTCCTTGTCCCTCTCCCGCATGGAAATTAAAGAGATTGCAAGCAGGACCCGCAGGGAACTGCTAG
Seq A exon
GTAACCATGGCTGCCAGGCTTTGTCCCCACGGCTTGTGACTAGACCAGCGGTTTCACCTTTGGCTGTCTATCACTTTCAAAACCCAGAGGTTAAAAGAGAACCATGAGGGGCTGGAGAGAGGGCTCAAAGGTTAAGAGCACTGACTGCTCTTACAAAGTCCTGAGTTCAATTCCCAGCAACCACAGGGTGGCTCACAGCCATCTATATAGTGAGATCTGGTGCCCTCTTCTGGCTTGCAGGCATACATGCAGGCAGAACATTGTATACATAATAAATAAATACGTTTTAAAAAAGAAAGAAAATGACATCTTTTAAAGGGGGGTGGGGTGGACAATGGGTCCAGTGAGGAGGCTCAGAGAGTTCAAGCACTCCTTTCAAATTTGACAGCCTGAGTTGGAGCTCCAGGACATATATGGCTGAAGGAGAGCTGACTCAAGCTGTCCTCTCATCCACACACAAATGATATGATAAAGTAATGTAAAGAAACTCCCTTCAGAAGAGATTTATAAATCTGTCAATCATAATTACATCTACACCAGAGAATACTGTACCATTTCCCACCAGGGATGGTGGTAATCTCTAGTACTAGGACAGAAAGCATACCAAGCCATGTTAACAGGGGAAACAGGCAATGAGAACAAAAGGCAGCGCACGCCTTTAATCCCAGCAGTCCAGAGGCAGAGGCAGAGGCAGGTGGATCTCTGAGTTTGAGGCCAACCTGGTCTACAAAGCTCTGGTCCAGGACAACCAGAGCTACCCAGAGAAACCCTGTCTCAAAAAACCAAAAATAAAATAAAGTGGGCAGGAAAACTGGAGGGAAGTGGGGTAGATTTGATCAAAACTTATGATATGCCTGTGTGAAATTTGCAAAGAACTTTCTGTCCCCTGTGGTAATGGTCCACTGGCCTGTGGTTTTCCTCTATAATGTAG
Seq C2 exon
GCCTCTCTGATGATGGTGGAACCAAAACAGAGGGAGCACCAAGGGCCAAATCAAAAACCCGGAAGCGGTTGGAAGAAAGCCAAGGAGGCCCCAAGCCAGAGACTGTGAGGTCAGCTAGTAGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038860-Garnl3:NM_178888:27
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.274 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
ACAAGATTCCACTTAGAAACCTTGTG
R:
TGTCACTACTAGCTGACCTCACA
Band lengths:
318-1249
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: