GgaINT0035018 @ galGal4
Intron Retention
Gene
ENSGALG00000002681 | HSD17B7
Description
3-keto-steroid reductase isoform 1 [Source:RefSeq peptide;Acc:NP_001264435]
Coordinates
chr8:3793176-3793558:-
Coord C1 exon
chr8:3793355-3793558
Coord A exon
chr8:3793269-3793354
Coord C2 exon
chr8:3793176-3793268
Length
86 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTGTCCCGCTCTCCCTGCAGGTT
3' ss Score
14.64
Exon sequences
Seq C1 exon
CGGCGTGGGGCTCGCTCTGTGCCGGCGGCTGCTGGGGGAGGATGGACGCATCCACCTGTGCCTCGCCTGCCGCAACGCCCAGAAGGCGGAGGCCACGCGGGACCTGGTGCTGCAGGAGTACCCCGCCGCGCAGGTCTCCACCGTGGAGGTAGACCTGGGCAACCTGGCCTCCGTGCTGCGTGCTGCCCAGGAGCTGCGCTGCAG
Seq A exon
GTGAGTGGCTGCCCCTGCTGTCCCCATCTGACCCCCCCACCGCGTCCCCCCGTGCTGCTCACCCCGCTGTCCCGCTCTCCCTGCAG
Seq C2 exon
GTTCCAACACCTGGACTTCGTCTACCTCAATGCCGGCATCATGCCCAACCCGCATGTCAACTTCAAGGCCCTCTGGAAGGGGCTCCTGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002681:ENSGALT00000004223:2
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:
PF0010620=adh_short=FE(63.6=100)
A:
NA
C2:
PF0010620=adh_short=PD(27.1=90.6),PF0010620=adh_short=PU(10.5=34.4)
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:
GACCTGGTGCTGCAGGAGTA
R:
TCCAGAGGGCCTTGAAGTTGA
Band lengths:
181-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]