DreINT0150296 @ danRer10
Intron Retention
Gene
ENSDARG00000006240 | slc27a1a
Description
solute carrier family 27 (fatty acid transporter), member 1a [Source:ZFIN;Acc:ZDB-GENE-050320-112]
Coordinates
chr3:52339994-52340388:+
Coord C1 exon
chr3:52339994-52340158
Coord A exon
chr3:52340159-52340241
Coord C2 exon
chr3:52340242-52340388
Length
83 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAA
5' ss Score
5.07
3' ss Seq
GCTCATGTGTGTTTGTACAGGTG
3' ss Score
7.87
Exon sequences
Seq C1 exon
GTGATGTTTTGGTAATGGACGAGCTTGGATACATGTATTTCCGAGACCGAAGCGGAGACACGTTTCGTTGGAAAGGAGAGAACGTGTCCACCACTGAAGTAGAGGGAACGCTGAGCGGCCTGTTGAGACAGACTGATGTGGCAGTGTTTGGAGTAAACGTACCAG
Seq A exon
GTGAAACAATTGAAGTATTAGTCTATAATTCCAAAGTGTAAACCTCTGATTCCTCATAAACCTGCTCATGTGTGTTTGTACAG
Seq C2 exon
GTGTGGAGGGAAAAGCGGGAATGGCTGCCATCGCTGACTCGACTGGAAGCTTCAACTGTAATTCTTTCCTAAAAGAGGTTCAGCAAGCTCTTCCTCCATATGCACGGCCAATATTTCTACGCATCTGCCCATGTGTAGATACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006240:ENSDART00000018908:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.000
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGCGGAGACACGTTTCGTT
R:
GAAGCTTCCAGTCGAGTCAGC
Band lengths:
170-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]