MmuINT0145933 @ mm9
Intron Retention
Gene
ENSMUSG00000059316 | Slc27a4
Description
solute carrier family 27 (fatty acid transporter), member 4 [Source:MGI Symbol;Acc:MGI:1347347]
Coordinates
chr2:29661136-29663034:+
Coord C1 exon
chr2:29661136-29661530
Coord A exon
chr2:29661531-29662875
Coord C2 exon
chr2:29662876-29663034
Length
1345 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CTGAAGTGTCTCGTCTTCAGCTA
3' ss Score
5.52
Exon sequences
Seq C1 exon
TGGTGGCATGGTGCTCCTGAAGGTGAAGACCAAGGTGCGACGGTACCTTCAGGAGCGGAAGACGGTGCCCCTGCTGTTTGCTTCAATGGTACAGCGCCACCCGGACAAGACAGCCCTGATTTTCGAGGGCACAGACACTCACTGGACCTTCCGCCAGCTGGATGAGTACTCCAGTAGTGTGGCCAACTTCCTGCAGGCCCGGGGCCTGGCCTCAGGCAATGTAGTTGCCCTCTTTATGGAAAACCGCAATGAGTTTGTGGGTCTGTGGCTAGGCATGGCCAAGCTGGGCGTGGAGGCGGCTCTCATCAACACCAACCTTAGGCGGGATGCCCTGCGCCACTGTCTTGACACCTCAAAGGCACGAGCTCTCATCTTTGGCAGTGAGATGGCCTCAG
Seq A exon
GTGAGCTGCATGTGGGAGACCCGTGGGACCTTGCACAGATGACAGCTCTGTTCTATTCCCGAGGGAGGCTGTATGAGTCTCGGCACCAGAGCTTCTGGACCTGCCAGGGATGCTGCAGAGCCTTTATGAACCACAGGTCTCCTGAGCCTTGGTTTCCCTAGCCGCAGCACCACAGATCTCAAGAAGGTCTTGCTCTTAAGCACCCACAGAGTGGCCAGTGCTGTCTGGTCCTTGGGTAGATTGGCCTCGTCTGCTTTATCTGTACAAGGGGAGCAGAACTTAGGTCCCTTCCTTCCTCTCAGACCTGGCTTTTATTTCTTGCTGAGTCAGGGATGAAAAGTGCTGAGCATGGAGCTTTCCGAAGCTCTGATCTTCACTAAGACTGAAGAGACTGCAGTTGTCATCTTGGTTTTTGGACTGTGAGTCAGGTTCAGAGGGAAGTGAGGTGTTCACCTAGCATCACACAGACACAGCAGGCTTACGAGTTGATCTCAGGCTGGACCACAGACTTCCTGGTCTTTCTCCCTATACTGCTGTGGTCATGAGGTAGTGGGAGAGGTGTTAAGATGCTCCAAGTGGAGAAGAAAGAATACAGCAGTGAGAGAAGCCCTTTCGGTGAGTCAGAGGGAAGCCAGGAAGACTGAAGACATAGCTCTTTCATTCATAGTACTGAAGAAGGAATTTAAAGCTAGGCAAAGCAGAACCAGCAGGCCAGGATCGTCTCATGCCCAGAGTGAATAGAGTCTCTGCCGCTCCAAGAGGCCTGAGAAAAGGTTTTCTGCGAATGGGAGCCTCTGTCCTCCTCTTGTCCTCTAATTGTCTCTGACAGAAAGCCATACTAGAGCAGACTAAAAAGAAAAGCTCAATGTGAGATTGCAGCATCTCTTCCATCTTTAGCATTACTTTCACCATCTGTAAAATGGGCTGATGGTAGCTAGCATGATGGTATATACCAAAAATCCTAGCACTAGGGGCCAGGAGGATTGGGTTACATTGCATTACATCGCATTATCAGGCCATATACATAGCTACTTTCCCTCCTTCTCCTCCTCTCCCTCTTCTTCTTCCTCCTCTTCTTTCCGTTCTTTTTTTCAGCAGGGTCAGAGGTCAGGGAGGTGGAGAATTGGTTTTTGGTAGCTACCTCCCAACTCTGAGCAGGAGCCTATGAGTAAGGCATCGTGATTCCTGAAAGTTCCTGAGAAATGCATCTCCTGACAATAGTAAATGTGTCTCACCCATTTCCCCACACCATTCAGTCTTCCCTGACTGTCAGCCATGCATGACAAAGGTCCAGGGAACACGGGCTTGCTAGACTGCCTGCTGACCTGAAGTGTCTCGTCTTCAG
Seq C2 exon
CTATCTGTGAGATCCATGCTAGCCTGGAGCCCACACTCAGCCTCTTCTGCTCTGGATCCTGGGAGCCCAGCACAGTGCCCGTCAGCACAGAGCATCTGGACCCTCTTCTGGAAGATGCCCCGAAGCACCTGCCCAGTCACCCAGACAAGGGTTTTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059316-Slc27a4:NM_011989:3
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=PU(24.5=79.7)
A:
NA
C2:
PF0050123=AMP-binding=FE(12.2=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:
GACAGCCCTGATTTTCGAGGG
R:
CCCAGGATCCAGAGCAGAAGA
Band lengths:
350-1695
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: