MmuINT0145929 @ mm9
Intron Retention
Gene
ENSMUSG00000059316 | Slc27a4
Description
solute carrier family 27 (fatty acid transporter), member 4 [Source:MGI Symbol;Acc:MGI:1347347]
Coordinates
chr2:29667785-29668236:+
Coord C1 exon
chr2:29667785-29667922
Coord A exon
chr2:29667923-29668071
Coord C2 exon
chr2:29668072-29668236
Length
149 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
ACTAACTGTCCCCTCCCTAGGTG
3' ss Score
11.2
Exon sequences
Seq C1 exon
GTCAGCCAGGCCAGCTGGTGGGTCGCATCATCCAGCAGGACCCTCTGCGCCGTTTCGACGGGTACCTCAACCAGGGTGCCAACAACAAGAAGATTGCTAATGATGTCTTCAAGAAGGGGGACCAAGCCTACCTCACTG
Seq A exon
GTGAGTCCCCTGCTGTTTGTCCTTCCAGAGGGGACAGGGAGAAATGAGAGCTTCCAGTCTCAGAGAACACATCCCCTGTGATGACTTCCTGACTCAACCTGTGTCAGGAACTAGGCTGGCCCAGTCATGACTAACTGTCCCCTCCCTAG
Seq C2 exon
GTGACGTCCTGGTGATGGATGAGCTGGGTTACCTGTACTTCCGAGATCGCACTGGGGACACGTTCCGCTGGAAAGGGGAGAATGTATCTACCACTGAGGTGGAGGGCACACTCAGCCGCCTGCTTCATATGGCAGATGTGGCAGTTTATGGTGTTGAGGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059316-Slc27a4:NM_011989:10
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=0.054
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(10.6=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(5.5=42.9),PF131931=AMP-binding_C=PU(30.3=41.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTCGCATCATCCAGCAGG
R:
ATCTGCCATATGAAGCAGGCG
Band lengths:
255-404
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: