DreINT0150335 @ danRer10
Intron Retention
Gene
ENSDARG00000017047 | slc27a4
Description
solute carrier family 27 (fatty acid transporter), member 4 [Source:ZFIN;Acc:ZDB-GENE-050417-248]
Coordinates
chr10:10808725-10809155:+
Coord C1 exon
chr10:10808725-10808816
Coord A exon
chr10:10808817-10809045
Coord C2 exon
chr10:10809046-10809155
Length
229 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
GTGTTGTCTGTGTCCGTCAGGAA
3' ss Score
7.95
Exon sequences
Seq C1 exon
GTATTACCGCATGGCTGCCTTGGTCTACTATGGTTTTAGGATGAAGCCTGAGGATGTGCTTTATGACTGTTTGCCGCTTTACCACTCTGCAG
Seq A exon
GTACGTGACTGAACACAGGCTGATCAAAACCTTCATGATGTGTGCACATTTCCTGTCACAGAGTTCATTTCAGGCCACTTCCTGTGTGACAGCTTTGTGGTTTGTTAATATGCTTGTATGTTTTTCATGCAGTTTAAATAAAATAAGAAATTACTTTTTCTTTTTAATGAACTTTCTTTGTCTTTACTTTATGGAAGTAATCAGTAGGTGTGTTGTCTGTGTCCGTCAG
Seq C2 exon
GAAACATAGTGGGAATTGGACAGGGTTTGATCCATGGAATGACTGTAGTGATCAGGAAGAAGTTCAGTGCTTCAAAGTTCTGGGACGACTGTATCAAATACAACTGCACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017047:ENSDART00000004181:6
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(7.2=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(8.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATTACCGCATGGCTGCCTTG
R:
GCAGTTGTATTTGATACAGTCGTCC
Band lengths:
198-427
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]