MmuINT0067595 @ mm9
Intron Retention
Gene
ENSMUSG00000038860 | Garnl3
Description
GTPase activating RANGAP domain-like 3 [Source:MGI Symbol;Acc:MGI:2139309]
Coordinates
chr2:32941395-32942724:-
Coord C1 exon
chr2:32942602-32942724
Coord A exon
chr2:32941465-32942601
Coord C2 exon
chr2:32941395-32941464
Length
1137 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCG
5' ss Score
9.67
3' ss Seq
ATGAAGCATTTTTGTTCCAGCTC
3' ss Score
4.98
Exon sequences
Seq C1 exon
AAACAGTGTCCTGGCAGAGAGTCAGCTCTGTGGATGCTGAACATCAGAGTCGGTCTCTTGCTGAATGTGCCAGGAGGGCTGTAATTTAGAAAATGTAGCTACCTTGTAAGGAAGGATGAAAAG
Seq A exon
GTACCGAGTGCACCTGTCTCTGCATGCGACAGTCCGACCAGTTGGAATTGGTGAAACGTGATTCTTGCAGAATCTTATTTTCTGTTGTATTAGAGCTGTTTGCATGACATGGTCAAGCCAAACTTACAAAAACTGTTGGTACTGGGGGGCTGTCTGTCTGTGGGCTTCATGGCTACTGTGTTAGAGTCCTAGGTAGACTGAGTAGCCAATTAGATATGTGCCTTTGGAGAAGGGAGCTATGCATGCAGTGCAAACGCAGTAGCAATTTGCATCCTTGTTTTAATTGCTCTTGGACCATGGCATGTGAGTTTGCTTATCTGATTTAAGCCTGTTTGGGTGGGGATGGAGGGGAGGGTGGGAAGTATTAGTTGTTGCCATGTCAAAATTAAATATACTCAGATGTTAGATTTTTATATTTTATGCTAGTCTTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCACCTCCCCCTATGTTAACATGTAAAAATTTTAAATTAAAAGCTGGGGGAAGGGAGGGGGCCTATGAGGATTTGGGAATTTTTTTCTCCTCCTTAAAATACAGCTTTAAATGATGCTGGTTATTTTTATGTTGCATATTTGGGACAAAGAGACTCTACTCTTTTAAGCAAAGGATAATTGCAAGATCTGGTTCAGCAGCTTTGTCCCTTGCCTCAAGTTCCTGCAGGGCTGCCATCCCCTTCGGTAATACCGAGTGAAATCACAAGCCGCCAATAGCTTTGGGAATTTCAATTGATTCCAAATGAGCTAAATATTTAAGTCAGTCATTACCTGTACTTCTAGGGATGACTTGGGCATTTTCCTTTTGACTGAGGGCTTCATGAAAGCCTGATTCTGCAATGGCTGCTGGGGACGGTGTTTGTTGCAAGGATGCTCCCCTGCAGTGAGGCGCCGGAGCACTGCAAACCTGTTTCATAGCAGCCGTTTCTTTTTCTTTTTCTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTTTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTTTTTTTTTCTTTCTCAGAAGGTGTGTAGCCAGATCGCTATGTATAATACTGATGAAGCATTTTTGTTCCAG
Seq C2 exon
CTCTGTCTCAGAAGACCTAGGCTGTAGACGTGGGGATTTCAGTAGGAAGCATTATGGATCTGTGGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038860-Garnl3:NM_178888:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACAGTGTCCTGGCAGAGAGT
R:
CAGCTCCACAGATCCATAATGCT
Band lengths:
192-1329
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: