MmuINT0145900 @ mm9
Intron Retention
Gene
ENSMUSG00000031808 | Slc27a1
Description
solute carrier family 27 (fatty acid transporter), member 1 [Source:MGI Symbol;Acc:MGI:1347098]
Coordinates
chr8:74108741-74109391:+
Coord C1 exon
chr8:74108741-74108905
Coord A exon
chr8:74108906-74109244
Coord C2 exon
chr8:74109245-74109391
Length
339 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGC
5' ss Score
2.13
3' ss Seq
AGCTGAGTCCTCTTTTGCAGGAG
3' ss Score
6.16
Exon sequences
Seq C1 exon
GTGACGTGCTAGTGATGGACGAGCTGGGCTACATGTATTTCCGTGACCGCAGCGGGGACACCTTCCGCTGGCGCGGGGAGAACGTGTCCACCACGGAGGTGGAAGCCGTGCTGAGCCGCCTACTGGGCCAGACGGACGTGGCTGTGTATGGGGTGGCTGTGCCAG
Seq A exon
GCAAGCTGGGGACACAGGGTGGTTGTGGTGTGCAGGAGCCCCATGGAGTCCATCCAGAAGGGACCTGCAGGTACAGTACCCGTGGGCCATGCACAAGGTGGAGAACTGTGTTGCTGCTGACTGGGTGGGCACTGGGTTGGGAATCCATCCACATTCCTAATATTGAACTTCAGTCTGGGGGACCCCTTCTCAGGATCAGAAGGCTGAAAACAGGACCACCCCCCCCCCATAAAATGGATACTACCAGGACTAGTGACCTCCCAGTTAGGAGGTCAGAGAGTAATGACCAGGACTAACTTCAGGTGGGCAGAGTGTTCTCAGCTGAGTCCTCTTTTGCAG
Seq C2 exon
GAGTGGAGGGGAAAGCTGGCATGGCAGCCATCGCAGATCCCCACAGCCAGTTGGACCCTAACTCAATGTACCAGGAATTACAGAAGGTTCTTGCATCCTATGCTCGGCCCATCTTCCTGCGTCTTCTGCCCCAGGTGGATACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031808-Slc27a1:NM_011977:12
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.040
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(5.5=42.9),PF131931=AMP-binding_C=PU(30.3=41.1)
A:
NA
C2:
PF131931=AMP-binding_C=FE(64.5=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:
GCTAGTGATGGACGAGCTGGG
R:
TGGTATCCACCTGGGGCAGAA
Band lengths:
302-641
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: