MmuINT0145902 @ mm9
Intron Retention
Gene
ENSMUSG00000031808 | Slc27a1
Description
solute carrier family 27 (fatty acid transporter), member 1 [Source:MGI Symbol;Acc:MGI:1347098]
Coordinates
chr8:74093241-74094787:+
Coord C1 exon
chr8:74093241-74093347
Coord A exon
chr8:74093348-74094619
Coord C2 exon
chr8:74094620-74094787
Length
1272 bp
Sequences
Splice sites
5' ss Seq
CAGGCAGGC
5' ss Score
2.12
3' ss Seq
CTCAGCTGTGTGCTCCGCAGGAT
3' ss Score
9.48
Exon sequences
Seq C1 exon
CTCTCTCCACCCCCGGGTGTGAATTTCGACTTTCTCGGAGTCTGGAATGCTGAGAAGCCTCGGGGCTTGGATCTAGGACAAGCTGGATCAGGCAAGCTCCAGCACAG
Seq A exon
GCAGGCGCTGGGCGGGAGTGGGTCATGGGCGCAGGGATGGGGATCTTGCAGACTTTCTGGGATTTAGCGGGACGGAGCCACACCCCTGGAGCCATAGCCCCGCCTTCAGCACCTGCTTGTTTTCACCGCTTGGTTGCCGTGGAGACTCGTAGGTACCCTGGGCTAGCCGCTCTAGCTTGAGAGTCTCGTTGGGTTGCGGGCTCTCTGGCCCGCGGTTCTTCTCGATGGCCTAAGCCTTCCGGAAGGGGGTCGGCCGGTGCGGAGCCGGGTTGAGGGGCTGAGAGCTTTTGGCCGCGGATTGGAAGGTTTGGGGCGGGACTAGGTGGGCCGCACGGACCGGGCCTCTCTGTGAACAGTGACTGTCGAAGCCTGGAGGCAACGCGGGAGGCTCAGGTAGAATCTGGGTCCCGAATGCCAGATAGTCTCGGGACTGTGGGCGGGCCCGCGCCTGTGGGCGGAGCCATAGGCATCACCTGGCGCGTAGCCCGGGTCAGTGCGGAGGTGCGGATGGGGGCGGAATGTTGGGACTGCTGAGGGCGGGGTCAAAGGCTTCACCTGTAGGGAGGGATTTGAGGGTAGAGTGATCACCTGTGAGCTAGGGGGGTGGGGTCACAGGCCTTCATCTGGAGGAGGAGCCTCGATCAGGTTGCCGGACTTTGATTTGAGGCTCCCAATGTGGGCGGAGAAAGAGGCCTCAGTTGGGGCGTGGCCTAATGATGAGGGGGATGATGGAGGCTGTCCTTGTAGGAACACCCAGCCTCTGAGGCCGGATAAGCATGAGGATAACAAGTGAATTTTGAGACACAGAGGAGGGATGAGGCGACATTAGGGCATGGCCTGGACCATTGGCTGCGAAGGGCCTAGGTGTGTGCGGGTTACTAGGCGACCCCAGGCTTGGAGGGCTGAAGCTCAAGGGTGGAGCTTGACCGTGGGGGTGTCTAGCCACGTGGTCAGTGCTTGGGGAAGGGGGGAGGTCTGGCTTTGATGGGCGGAGGATAAAGATTGATATGGAAGTAGCCAATCCCAGGCCTTGAGGCGGTCAATGTTAAGTAAACTGGTTGGATTTGGCTTTCTTGGTGCTTAGCTCAGCGGCGGCGGGGCGGGACCTGATACTAAGGTACACGCTGGGGGCGGGGCCAGGCTTGTAGTAAAAGCGTTTGGGTTTAGGCTACAGTGTGGAAAAAGAACGCGGCCAGGGTCTGTGACGTGACCTGGGCGGGATCAGGACTAGGTGGGAGGCGGTACCTGCGGTCTCAGCTGTGTGCTCCGCAG
Seq C2 exon
GATGCGGGCTCCTGGAGCAGGAACAGCCTCTGTGGCCTCACTGGCGCTGCTTTGGTTTCTGGGACTTCCGTGGACCTGGAGCGCGGCGGCGGCGTTCTGTGTGTACGTGGGTGGCGGCGGCTGGCGCTTTCTGCGTATCGTCTGCAAGACGGCGAGGCGAGACCTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000031808-Slc27a1:NM_011977:2
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCGGGTGTGAATTTCGACTT
R:
TCTCGCCTCGCCGTCTTG
Band lengths:
258-1530
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: