MmuINT0145905 @ mm9
Intron Retention
Gene
ENSMUSG00000031808 | Slc27a1
Description
solute carrier family 27 (fatty acid transporter), member 1 [Source:MGI Symbol;Acc:MGI:1347098]
Coordinates
chr8:74103806-74104113:+
Coord C1 exon
chr8:74103806-74103967
Coord A exon
chr8:74103968-74104043
Coord C2 exon
chr8:74104044-74104113
Length
76 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
GACCCTTGCTTTTTGTGCAGATC
3' ss Score
8.91
Exon sequences
Seq C1 exon
CGGTGGCGGAGGTGAGCGAGCAGCTGGGGAAGAGCCTCCTCAAGTTCTGCTCTGGAGATCTGGGGCCTGAGAGCATCCTGCCTGACACGCAGCTCCTGGACCCCATGCTTGCTGAGGCGCCCACCACACCCCTGGCACAAGCCCCAGGCAAGGGCATGGATG
Seq A exon
GTAAGTGGAGGGGTCCCTGACATCTATCCCCCGTGTTCTCTGCTCTCCTGGTGCCTGACCCTTGCTTTTTGTGCAG
Seq C2 exon
ATCGGCTGTTTTACATCTATACTTCTGGGACCACCGGGCTTCCTAAGGCTGCCATTGTGGTGCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031808-Slc27a1:NM_011977:5
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=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(12.4=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(5.3=100)
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:
TTCTGCTCTGGAGATCTGGGG
R:
ACAATGGCAGCCTTAGGAAGC
Band lengths:
176-252
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: