DreINT0150302 @ danRer10
Intron Retention
Gene
ENSDARG00000006240 | slc27a1a
Description
solute carrier family 27 (fatty acid transporter), member 1a [Source:ZFIN;Acc:ZDB-GENE-050320-112]
Coordinates
chr3:52323439-52323863:+
Coord C1 exon
chr3:52323439-52323530
Coord A exon
chr3:52323531-52323753
Coord C2 exon
chr3:52323754-52323863
Length
223 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
CTGTTTTTACTCTTGAACAGGTA
3' ss Score
10.25
Exon sequences
Seq C1 exon
GTATTACAGGATTGCTGCTTTCGGCTACCTTTCTTTTCGTATGCGGCCAGATGACATCATTTATGACTGTTTACCCCTTTACCACTCAGCAG
Seq A exon
GTATGGACCATTTCACAAACATAACTGTACTAACTAGAACAATATCAGCAGCATTTTGTTGATTTTTACGTATTTTTTCCTCTATTTTCTCTGAAAAGCTGATTTGATACAGTTTTTCTTGTATGAAACGCACTATAGAAACAGCAGAAAGTTTTTAATCAGTTGCTGGCATTAATATACTGACATATAGTTTTCTCTGTACACTGTTTTTACTCTTGAACAG
Seq C2 exon
GTAATATAATGGGGGTGGGCCAGTGTCTGATTCATGGTTTAACTGTGGTGGTCAAGAGGAAGTTTTCAGCAAGTCGCTTTTGGGAAGACTGCATCAAACACAACTGCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000006240:ENSDART00000018908:6
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=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(7.1=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(10.9=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:
CAGGATTGCTGCTTTCGGCTA
R:
AGTGCAGTTGTGTTTGATGCA
Band lengths:
196-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]