GgaINT0004608 @ galGal3
Intron Retention
Gene
ENSGALG00000009754 | HK2
Description
NA
Coordinates
chrUn_random:10834577-10834933:+
Coord C1 exon
chrUn_random:10834577-10834636
Coord A exon
chrUn_random:10834637-10834813
Coord C2 exon
chrUn_random:10834814-10834933
Length
177 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CCTCAACCATTGCCTTTCAGCTC
3' ss Score
6.81
Exon sequences
Seq C1 exon
GATATGGAGAGCCAGATCTACGAGACCTTTAAGGACCTCATGCGAGGCAGTGGGATGCAG
Seq A exon
GTGGGCCTCCCCCCATCCCCACTGTCTCCCCCAAAAGGAACTTCAACCCAGAGTGGGGCAGCAGTCAAGACAACGCCAAGATGTCCTTCAAGATGCCAAGATGCCCTTTGAGATGCTGAGACGTCCTTCAAGATGCCAAGATGTCAGCGTTGCTCATCCTCAACCATTGCCTTTCAG
Seq C2 exon
CTCTTTGACCACATCGCCGAGTGCCTGGGCAACTTCATGGAGAAGCTGAAAATCAAGGACAAGAAGCTGCCCCTTGGCTTCACCTTCTCCTTCCCGTGTCACCAGACCAAGCTGGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009754:ENSGALT00000036098:5
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:
PF0034916=Hexokinase_1=FE(9.2=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(18.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGAGCCAGATCTACGAGAC
R:
CATCCAGCTTGGTCTGGTGAC
Band lengths:
174-351
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]