GgaINT0124111 @ galGal3
Intron Retention
Gene
ENSGALG00000004965 | SLC27A4
Description
NA
Coordinates
chr17:5605938-5606398:-
Coord C1 exon
chr17:5606261-5606398
Coord A exon
chr17:5606103-5606260
Coord C2 exon
chr17:5605938-5606102
Length
158 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
AATCTGTCACTTTCCTGTAGGGG
3' ss Score
8.53
Exon sequences
Seq C1 exon
GGGAGCCGGGGCAGCTGGTGGGCCGCATTGTCAAGAGCAACCCCCTGCAGCACTTCGATGGCTACCTGAATCAGTCAGCCACCAGCAAGAAAATTGCCAGGGACGTGTTTGCAAAAGGGGATGCTGCCTATCTCACAG
Seq A exon
GTAGGCAAGTAGGGCCTTTGCATCTGCTCAAGGGAGAGGGGTACTTGGATGGGCTCAGGGATGTCCCAGGCTGGTGGCACTGTCCTGAGATGCTCTGGGGAAGCGCTTAGCTCCTCTCACACCTCGTTTTTTTTTGTAAATCTGTCACTTTCCTGTAG
Seq C2 exon
GGGATGTCCTGGTGATGGACAAATACGGTTACATGTACTTTCGGGACCGCACTGGAGACACATTCCGCTGGAAGGGAGAGAACGTCTCCACTACTGAAGTGGAGGGGACGCTGAGCCGCATCCTCAACCTGACAGACGTGGTTGTGTATGGGGTGGAGATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004965:ENSGALT00000007962:9
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=0.036
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
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCACTTCGATGGCTACCTG
R:
GGGATCTCCACCCCATACACA
Band lengths:
254-412
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]