GgaINT1014871 @ galGal4
Intron Retention
Gene
ENSGALG00000021039 | HKDC1
Description
hexokinase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23302]
Coordinates
chr6:10449334-10450063:+
Coord C1 exon
chr6:10449334-10449638
Coord A exon
chr6:10449639-10449914
Coord C2 exon
chr6:10449915-10450063
Length
276 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
ATATCTTTCTTCTCTTACAGAGA
3' ss Score
11.39
Exon sequences
Seq C1 exon
ATACCCCAAACGCCTGCACAAGGTAGTGAGAAGGCTGGTCCCAAATTGTGATGTTCGGTTCCTCCTCTCTCAGAGTGGCAGCGCAAAGGGGGCTGCCATGGTGACGGCGGTGGCACACAGGCTGGCAGCTCAGCGCAAGAAAATTGATGCTGTTCTTGCACCTTTCGTGCTAACCCTGGAGACCCTCAGAGATGTAAAGAACAAAATGAGGACCGAGCTGGAGTATGGGCTAAAGAGAGAGACGCAAGACAGGGCTACAGTGAAGATGTTGCCAACGTATGTCTGTGGGACACCAGATGGAACAG
Seq A exon
GTAAAGTTATCTCCTGGTCACCTGAAGATGGTGCAAGAAAGCTGTTTGTCTGGCAATTGCCACAATTTCTGTTGGCAAACCAAAGTTTCCTGCCATATTACCTGGCTGGTCCGTTAGCCCTTGGCCTAACATACAGATGGGATAAATGCCATAGGGAGCAGTGTGCTGTCATTGGCCCAGGTGAAGTTTCTTGCAGTTATCTGGCAGAGTATGGCATTCTGACTGGAAAACACACTAAAAGAAGCACTAATATGAAATATCTTTCTTCTCTTACAG
Seq C2 exon
AGAAGGGAAAATACCTTGCCCTTGATCTTGGTGGGACAAATTTCAGGGTTCTGCTTGTCAAAATTAGAAGTGGAAGAAGGAGATCAGTACGAATGTATAACAAAATATTTGCCATTCCTTTGGAGATCATGCAAGGGACAGGGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021039:ENSGALT00000006717:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.010 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=PD(16.7=38.8),PF0034916=Hexokinase_1=PU(29.1=58.3)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(23.8=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:
TGCTGTTCTTGCACCTTTCGT
R:
TTCCCCTGTCCCTTGCATGAT
Band lengths:
304-580
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]