GgaINT0035019 @ galGal4
Intron Retention
Gene
ENSGALG00000002681 | HSD17B7
Description
3-keto-steroid reductase isoform 1 [Source:RefSeq peptide;Acc:NP_001264435]
Coordinates
chr8:3792510-3793268:-
Coord C1 exon
chr8:3793176-3793268
Coord A exon
chr8:3792625-3793175
Coord C2 exon
chr8:3792510-3792624
Length
551 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGG
5' ss Score
6.91
3' ss Seq
CTCCCACCTTTGGCTTCCAGGAG
3' ss Score
8.77
Exon sequences
Seq C1 exon
GTTCCAACACCTGGACTTCGTCTACCTCAATGCCGGCATCATGCCCAACCCGCATGTCAACTTCAAGGCCCTCTGGAAGGGGCTCCTGACCGG
Seq A exon
GTAGGGATGGGGGTGGCACTGTGGGACTGCCCTGACTCGAGGGGTTGGTGACCGAGGGTCCAAACAGACCCAACTCAGCTTAGCATCACAGCACAGCTCAGTTTGGGAGGGATCTCCAGGTCCCCACCAGCTCAGGCTGCCTAGGATCCCATGCAGCTTGGCCTTGGATGCTTCCACGGATGGGGCATCCCCAGCTTCTTTGGGCAGCCTGGCTAGCCTGAGGCCTTGCCACTATAGAGGAGATCCTTACGTTCGACTGAAACCCACACTCAGTTTAAAACCTTTGCCCCGGAGCAGCGGGAGGTGTGGCTGTGCTTGGGGCACCCTGAGTGTGGTCTGAACCCTGCGGTGTTTTGTGATGCTTTGGTGGCAGGCTGTTAATTGGAGAGCTGAGCTGAGGTTCAAAGCTATGAGTTGGATTCTGATCCAGCTGGGTGCTGAACGTAGGCGCTAGGCTGCTTTCCTAATCTGCTAACAGCTCTTTGTTCCGTGCCTGAGATCGGTTTCCATGTCTGAATGCTTCCTCTCTATCTCCCACCTTTGGCTTCCAG
Seq C2 exon
GAGGTTACTCCATATGCTGACCACTGCAGAAGGCGTCATGACGCAGACGGACAGACTGAACGGGGATGGGCTGCAGGAGGTCTTTACCACCAACCTCTTTGGGCACTTCATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002681:ENSGALT00000004223:3
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=PD(27.1=90.6),PF0010620=adh_short=PU(10.5=34.4)
A:
NA
C2:
PF0010620=adh_short=FE(36.2=100)
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:
ACACCTGGACTTCGTCTACCT
R:
GGATGAAGTGCCCAAAGAGGT
Band lengths:
200-751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]