GgaINT1014838 @ galGal4
Intron Retention
Gene
ENSGALG00000004222 | HK1
Description
hexokinase-1 [Source:RefSeq peptide;Acc:NP_989432]
Coordinates
chr6:10489756-10491027:+
Coord C1 exon
chr6:10489756-10489855
Coord A exon
chr6:10489856-10490843
Coord C2 exon
chr6:10490844-10491027
Length
988 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
TCAATGTTTTCTCTCTTCAGGAA
3' ss Score
11.67
Exon sequences
Seq C1 exon
GAGTTTGACTTGGATGTGGTAGCTGTAGTGAACGATACGGTGGGCACGATGATGACTTGTGCTTATGAAGACCCAAACTGTGAAATTGGACTCATTGTGG
Seq A exon
GTATGTGTTTGAGATACTTCTGTCTGTATTCTCATGGGGACATCCCCGTGCTTTCCTGAAAATGTTCCATCAGTGCACATGAAGGAAGGTTCTGATTGACAAAGTGCATTGACTACCAGCTCCCTTCCTAGCAGTGGAACAGCTGAGATAACTCCACAGGTGGCTGCTGATTCCTTTGCATGTGTCATGCCTGGGCTTTGGCGATCCTTGTGGCATGGATGGTGTGAATTCCCAAAGTTCTCCAGAGAAATGAGTTCTCTGGGCCTTGCCCAGTGAGAAAGAGAAGGAAGGGATCAAAGCATCTCCGAGCTTAAAGAATGCTTTCAAAGTGGCTTGGAGGAAGATAAAAATATTACCAATTGCTCCTTCAGACAGCTGGAGGATGTCCAGGATGAGTCAGCACAGTGCAGTGTGGGTAGGAAGCCGTGTCTGTGCCGCTCCATTGCTGACACGTTTGCAGGGGGAGTTCCCTGCAGGAAGGGCAGCACGTCCTTGGGATGCTGTGAGCATCCGCTGTCTGTGCTGCAGCCCTGCCAGACACGCTCTGCAGCTGCTGTCTGTGTGCAGAGCAGGGGCTTGGTAGGTGGCCTGGGTGCCTCTGGGATAATGAGAGCAAAAGCCCCAGGGCTTTAACAGCCCCTGTCCCCTGCTTGGATTGCTTTGGCTACTGAATACATTGGAAAGTGCCACAGGTGAGACTGGGTCTCTGTTTTTCATCTGCTGGCAACAAGAGATCACCTATAGCCTGTCAGTCTGCAATTGAATTTTGTGCATCAGAAAAAAAAAAAAAGCACCCAACAAAACAAGCAAAAACTAAACAATACCCTGCCATTAGCCACTAAAATCCCTGGGGCTTTCTTTGCCTGATGCCTCAGAATTTCCTGAGGTTTTCCCTTTGCCAGATTTTCCCCATATTTCATAGGTCTGTGGGCTCTGTGGAAGGTGCCTGCAGGAATTTCAATATTTTCTCAATGTTTTCTCTCTTCAG
Seq C2 exon
GAACTGGCAGCAATGCCTGTTACATGGAGGAGATGAGAAACATAGAGATGGTGGATGGTGAGCAAGGACGGATGTGTGTGAACATGGAGTGGGGAGCTTTCGGGGATAATGGATGCCTGGACGATATCAGGACAATATATGACAAAGCAGTTGATGACTATTCACTAAATGCTGGAAAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:14
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=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:
AGTTTGACTTGGATGTGGTAGCTG
R:
GCTTTCCAGCATTTAGTGAATAGTCA
Band lengths:
279-1267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]