MmuINT0145904 @ mm10
Intron Retention
Gene
ENSMUSG00000031808 | Slc27a1
Description
solute carrier family 27 (fatty acid transporter), member 1 [Source:MGI Symbol;Acc:MGI:1347098]
Coordinates
chr8:71579404-71580068:+
Coord C1 exon
chr8:71579404-71579798
Coord A exon
chr8:71579799-71579906
Coord C2 exon
chr8:71579907-71580068
Length
108 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CTGAGCCTCTGTCACCACAGCGG
3' ss Score
5.7
Exon sequences
Seq C1 exon
TGGCCTCTCTGTTCTGATTCGTGTTCGGCTAGAGCTGCGACGACACCGGCGAGCAGGAGACACGATCCCGTGCATCTTCCAGGCTGTGGCCCGGCGACAACCAGAGCGCCTGGCACTGGTGGACGCCAGTAGTGGTATATGCTGGACCTTCGCACAGCTGGACACCTACTCCAATGCTGTAGCCAACCTGTTCCGCCAGCTGGGCTTTGCACCAGGCGATGTGGTGGCTGTGTTCCTGGAGGGCCGGCCGGAGTTCGTGGGACTGTGGCTGGGCCTGGCCAAGGCCGGTGTGGTGGCTGCTCTTCTCAATGTCAACCTGAGGCGGGAGCCCCTGGCCTTCTGCCTGGGCACATCAGCTGCCAAGGCCCTCATTTATGGCGGGGAGATGGCAGCGG
Seq A exon
GTGAGGCCTGGTGGATACCAGGAGGGTGGGGACCTAGGGACCTCAGGGATAGGGAGATGCTGGCCAGGGGTGCTTCATGACTGTGACCCTGAGCCTCTGTCACCACAG
Seq C2 exon
CGGTGGCGGAGGTGAGCGAGCAGCTGGGGAAGAGCCTCCTCAAGTTCTGCTCTGGAGATCTGGGGCCTGAGAGCATCCTGCCTGACACGCAGCTCCTGGACCCCATGCTTGCTGAGGCGCCCACCACACCCCTGGCACAAGCCCCAGGCAAGGGCATGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031808:ENSMUST00000034267:4
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=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(24.4=79.7)
A:
NA
C2:
PF0050123=AMP-binding=FE(12.4=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:
GATGTGGTGGCTGTGTTCCTG
R:
CCCCAGATCTCCAGAGCAGAA
Band lengths:
243-351
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