DreINT0150328 @ danRer10
Intron Retention
Gene
ENSDARG00000017047 | slc27a4
Description
solute carrier family 27 (fatty acid transporter), member 4 [Source:ZFIN;Acc:ZDB-GENE-050417-248]
Coordinates
chr10:10817084-10817532:+
Coord C1 exon
chr10:10817084-10817221
Coord A exon
chr10:10817222-10817367
Coord C2 exon
chr10:10817368-10817532
Length
146 bp
Sequences
Splice sites
5' ss Seq
CAGGTATCT
5' ss Score
7.33
3' ss Seq
AACTCTCTCTCTTCTCTCAGGGG
3' ss Score
10.37
Exon sequences
Seq C1 exon
GAGAGCCTGGTCAGCTGGTGGGTCGAATCATTCAGAACGACCCCCTCAGGCGATTTGATGGCTACGTCAATCAGACAGCCACTAATAAGAAAATTGCCCAGGATGTCTTCAAAAAGGGAGACAGTGCATATTTGTCAG
Seq A exon
GTATCTATACTTTTATTTTTGTTTTTGTATTACAGAAAAGTGAAAATGTTCTGATATAAAATGTTGTAAATTTGATCTGGTTTTGCTATAAAACAGCAAGAGAAGCTGATATGGCAATAAATTAACAACTCTCTCTCTTCTCTCAG
Seq C2 exon
GGGACGTGCTGGTGATGGACGACTTTGGCTATATGTATTTCAGAGATCGCACAGGAGACACGTTTCGCTGGAAAGGAGAAAACGTTTCCACTACTGAGGTTGAGGGAACACTGAGCCGACTGCTGGACATGAAAGATGTGGTGGTGTACGGAGTGGAGGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017047:ENSDART00000004181:10
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=0.054
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(10.6=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(5.5=42.9),PF131931=AMP-binding_C=PU(30.3=41.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCGATTTGATGGCTACGTCA
R:
ACTCCGTACACCACCACATCT
Band lengths:
244-390
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]