GgaINT1014850 @ galGal4
Intron Retention
Gene
ENSGALG00000009754 | HK2
Description
Gallus gallus hexokinase 2 (HK2), mRNA. [Source:RefSeq mRNA;Acc:NM_204212]
Coordinates
JH376259.1:21-448:+
Coord C1 exon
JH376259.1:21-265
Coord A exon
JH376259.1:266-372
Coord C2 exon
JH376259.1:373-448
Length
107 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGC
5' ss Score
5.97
3' ss Seq
TCACAATCCCGGCCCCACAGCTG
3' ss Score
6.14
Exon sequences
Seq C1 exon
GGTACGTGCCTGCAGACAGGTGAGCTGAGCCCCATGGGTGGGGTTTCCCTCTGAGTTGGCCGCTGCCCTTTAATTAGCGGTAAGGGAAGGTGATGGGGCCGGGGCACGGCCTGGCCGTCCGTCTGCACTGCCTCCCGTTGTCCGTCTGTCCGTCCGTCCGTCCGTCCGTCCGTCCCTGCCCCGCTCGGATGGGAGCCGGCAGTCGGCTCAGGTTCAGCTTCAAAGTGCTGCGATGCCGTTATGGG
Seq A exon
GTGAGCGGCTGTGATCCCTGCAGGACTCCCCCCCCCCCGCCCCCAGCGGTATCCCCCGTGCAGCACTGGGTCCCGTGCACTGAGCTGTCACAATCCCGGCCCCACAG
Seq C2 exon
CTGGAATCCAACCCCAGGATCCGACTTTGGGATGGCAGAGGGCAAGCTGGGCTGTGCGGTGTTTGGGTGCATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009754:ENSGALT00000015871:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.154
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0034916=Hexokinase_1=PU(1.5=11.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTTCCCTCTGAGTTGGCC
R:
CTGCCATCCCAAAGTCGGATC
Band lengths:
242-349
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]