DreINT0078102 @ danRer10
Intron Retention
Gene
ENSDARG00000038703 | hkdc1
Description
hexokinase domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-030131-9801]
Coordinates
chr13:22892771-22893394:-
Coord C1 exon
chr13:22893161-22893394
Coord A exon
chr13:22893076-22893160
Coord C2 exon
chr13:22892771-22893075
Length
85 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGT
5' ss Score
7.54
3' ss Seq
CTTTTATCTGATATTTAAAGGTA
3' ss Score
6.79
Exon sequences
Seq C1 exon
GTATAAAAGCGGTTTGGAAAACACCAAGGAGATCCTGGAGGACCTAGGACTAAATCCCAGTGACGATGACTGTATTGCAGTCCAGCATGTCTGCACCATCGTGTCCTTCAGGTCAGCTAATCTGGTGGCTGCAGCTTTGGCTGCCATCCTAACACGGATCAGAGAAAACAAAAAGCTGAAGACCCTTCGGACTACTGTAGGAGTGGATGGGACGGTCTACAGAACACATCCACA
Seq A exon
GTACGTCAGTTCTCCTCAAATGTAAAATCCAAGGAGATTAATTTAAAATCAGAAGCGGCTAAATACTTTTATCTGATATTTAAAG
Seq C2 exon
GTACCCCAAAAGGCTCCACAAGGTGGTCCGCCATCTGGTGCCAGACTGCCATGTGCGTTTTGTGCTGTCTGAAAGTGGCAGTGCCAAAGGTGCCGCTATGGTGACCGCCGTGGCTCAGCGATTAGCCTCCCAGCGGAAAGAGATTGATGATACCCTTGCAGCTTTTGCTTTGACTTCCACACAGCTCCAGGAAGTGAAGCAGAAGATGCATGTTGAGTTGGAACGAGGCCTGAAAAAAGAAACCCATCCCACTGCTTCAGTAAAAATGCTGCCCACATATGTTTACAGGACACCAGATGGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000038703:ENSDART00000056523:9
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=0.068
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=FE(32.5=100)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(16.7=38.8),PF0034916=Hexokinase_1=PU(29.1=58.3)
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:
GCTGCCATCCTAACACGGATC
R:
CTGCCACTTTCAGACAGCACA
Band lengths:
176-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]