GgaINT1014846 @ galGal4
Intron Retention
Gene
ENSGALG00000004222 | HK1
Description
hexokinase-1 [Source:RefSeq peptide;Acc:NP_989432]
Coordinates
chr6:10483581-10483954:+
Coord C1 exon
chr6:10483581-10483680
Coord A exon
chr6:10483681-10483770
Coord C2 exon
chr6:10483771-10483954
Length
90 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
TTCATGTCCTTTCCCTAAAGGCA
3' ss Score
7.93
Exon sequences
Seq C1 exon
GACTATGATGCAGATATCATGGCTGTTGTGAACGATACCGTTGGCACTATGATGACCTGTGGTTTTGATGACCAACGTTGTGAAGTTGGCTTGATCATTG
Seq A exon
GTAAGAGACATTTCTGCTGCAGAATTCATGTGGCTTTTTTTCCCTTTGCCTGGCCTGTTTACTTAGCACTTTCATGTCCTTTCCCTAAAG
Seq C2 exon
GCACTGGTACCAATGCCTGTTACATGGAGGAGATGCGGCACATTGACCTGGTGGAAGGGGACGAGGGCAGGATGTGCATAAACACAGAGTGGGGGGCCTTTGGGGATGACGGCTCACTAGAAGACATCAGGACAGAGTTTGATAGAGAGATCGACCGTGGATCCCTAAATCCTGGCAAGCAACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.016
Domain overlap (PFAM):
C1:
PF0034916=Hexokinase_1=PD(11.2=67.6),PF0372711=Hexokinase_2=PU(3.3=23.5)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(25.4=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:
ACCGTTGGCACTATGATGACC
R:
TAGTGAGCCGTCATCCCCAAA
Band lengths:
183-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]