GgaINT1014876 @ galGal4
Intron Retention
Gene
ENSGALG00000021039 | HKDC1
Description
hexokinase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23302]
Coordinates
chr6:10452311-10452909:+
Coord C1 exon
chr6:10452311-10452494
Coord A exon
chr6:10452495-10452753
Coord C2 exon
chr6:10452754-10452909
Length
259 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAC
5' ss Score
7.2
3' ss Seq
CTGCTTTGATATTTTGACAGATA
3' ss Score
7.05
Exon sequences
Seq C1 exon
GAACAGGTAGCAATGTGTGCTACATGGAGGACATGAAGAACATAGAAATAGTCGACGGGAATGAAGGAAAAATGTGCATTAATACAGAATGGGGAGGATTTGGTGACAATGGCTGCATTGACAACATCAGAACAAAATATGATAAAGAAGTAGATGAAGGCTCGCTAAATGCAGGGAAACAGAG
Seq A exon
GTAAACATGGCGATTCTGATGCTAAGAACCAGATTGAGTGAGTCTTTGAGATGCTGACTGCTTTATCAAATGAGAATAATGAAAATAATTTGAAAGGAAACTTTAATACTGATTTGTTTGGTGTTTGAAAAAATGGCTATTGCTTTGAAGGTTTTACTGCTTTCCTGAGTTTATCACACTGATCAGATGTGTATGTATACTTCTGTTAAATAACCTACAACTCCTTTAAAGGCACTTTTCTGCTTTGATATTTTGACAG
Seq C2 exon
ATACGAAAAAATGACCAGTGGAATGTATCTAGGTGAAATAGTGAGGCAAATTTTGATTGATTTGACCAAACAAGGACTGCTGTTCAGAGGACAGATTTCAGAATCACTCAGGAAAAGAGGCATATTTGAAACAAAATTCCTATCTCAGATTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021039:ENSGALT00000006717:15
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:
PF0372711=Hexokinase_2=FE(25.4=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(21.7=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:
TGTGTGCTACATGGAGGACAT
R:
TGCCTCTTTTCCTGAGTGATTCTG
Band lengths:
293-552
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]