GgaINT1014840 @ galGal4
Intron Retention
Gene
ENSGALG00000004222 | HK1
Description
hexokinase-1 [Source:RefSeq peptide;Acc:NP_989432]
Coordinates
chr6:10492739-10493788:+
Coord C1 exon
chr6:10492739-10492894
Coord A exon
chr6:10492895-10493554
Coord C2 exon
chr6:10493555-10493788
Length
660 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
GTGTTCTTCTGCTCCCACAGCGA
3' ss Score
9.94
Exon sequences
Seq C1 exon
GTATGAGAAGATGATCAGTGGGATGTACCTGGGGGAAATAGTCCGCAATATTTTGATTGACTTCACCAAACGAGGGTTCCTGTTCAGAGGACAGATCTCAGAGACTCTGAAAACCAGGCATATCTTTGAAACCAAGTTCCTTTCACAGATTGAGAG
Seq A exon
GTAAGGGCATCACGTGGGAGGTTGTGTGGAGTGAAGCAGTGTGGTAACATGTCGTGGTGCTGCTGGTGGGTCTTGACAGCTGGAGAGTAGGGCTTAGTTCCCCAGGGATGATTTTGGTTTCGTCAAGAGTCTGTACATGTGCAGGAGGGCTCCTTGAGATGCCTGCATTTCTAGCAGTGCCCACATCTACATCATAGAAATGGCTGTCAAAGGTTCCCTTACTGTATCACTGGACATCGTTTTTCTGTGCCTGTTTGTGCATAGCTCTAAGTGTTGAACTGAATGTACATCAGCTGAAGAATACTTCTTTAGTGGGTATTTTCATGTCTTCATTGCTCAGACACTGTATCTAAAATTCTGTTGAGCCTTTATGTGGGGGAGAAGAAAAACAAGTAGGTTGTTAGAAATACTTTCCTAAATGCCTTAGCTATGAAAAGAGAAAGCAATGCAAACCTGTACCAAGAGCCCTCCCTGCCTGTCTGTGCCCCTGACCCACGCAGCCTGTGTTGTGCAGCAGCATGGTGCTGGAAGGGACGAGCGGGCATTCCCTGAGGGCTGCTGCATGGCAGGGTGCGTGGAAGCAGCTGTTGATGTAATGAGGCTTCTGCCAGTGGCTCAGCTGAGGAAAGCCTTTAATGCTGTGTTCTTCTGCTCCCACAG
Seq C2 exon
CGACAGGTTAGCCTTGCTTCAGGTGCGAACCATTCTCCAGCAGCTGGGGCTCAACAGCACGTGCGATGACAGTATCATTGTCAAGACAGTGTGCGGAGCGGTGTCAAAGCGAGCAGCTCAGTTATGTGGTGCCGGAATGGCTGCCGTTGTAGATAAAATTAGGGAGAACAGAGGCTTAGAGCACCTGGAGATAACGGTTGGTGTGGATGGGACTCTGTACAAACTACACCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:16
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(21.7=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(32.5=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:
ATCAGTGGGATGTACCTGGGG
R:
CCAACCGTTATCTCCAGGTGC
Band lengths:
344-1004
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]