DreINT0078101 @ danRer10
Intron Retention
Gene
ENSDARG00000038703 | hkdc1
Description
hexokinase domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-030131-9801]
Coordinates
chr13:22893161-22894516:-
Coord C1 exon
chr13:22894361-22894516
Coord A exon
chr13:22893395-22894360
Coord C2 exon
chr13:22893161-22893394
Length
966 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CTAATTGAGGATTTTTCCAGGTA
3' ss Score
0.52
Exon sequences
Seq C1 exon
TTTTGAAAAGATGGTGAGTGGGATGTACATGGGAGAACTTGTGAGACTTATCCTTCTAAGAATGGCCAAGAAGGGTCTACTCTTTCGTGGCCAAATCTCGGATGCTCTTCGAACCAAGGGAACATTTCATACCAACCATATGTGCTTGATTGAACA
Seq A exon
GTAAGTTTACATATTCAAAATTATAAACTGAATATACCATGAAAATGGGTAATTGTTTTTAACTCTGAGCTACAGTTTGCCAGTGTACCACTCCTCCTATTACTTTAGGCATTGCATATTGATGTGTTCGGGATTATTTGATGGAGTTTAAGGCTGCATTTACACTGCACTGTTCAAGTAACTCAATTCCGATTTTTTTCTCCCATATGGCACAGATCGGATATGGTCCATGTACGTGTAAGCAGGAACAAATCACATGGATTCCGATATACTCAAATCAGATTCAGGCTTTGATCATATGTGGAAATTTATCAGATATGAATCAGATCTGTGTTCTCGTGTCTGCAGTATAAGCAGGTCAGATTTTCACCTGTCAATGCGAATTGTGCATCATTAAAAACCATAGCCAATGATGTCATTTCTGATGCTTTCAGTTCAGAACAGTCCCAAACCTTAAATCTCATGCACGAGGACTTAAATAGCTTTTATATTGTCATGTAGCACAGGTATTTAAACCAACAAAACCACAAAACCAACATAAACTAAAATAAAACTAGTGCATAGCTACATCAAGTGCATAAATCACGCCATGGATATTACATTAAGATGCCTAAAGATATTTAAAAAGCCTATATATGAAAAGAAGATGGACAAATGAGAACCTTTCTGTCATACACTATAGTAAAACAGCTTGTCAAAAGCTGTGAACAGATTACATACAGGAATAGAGAAAAGAGCCCTCTTTAATTATCAGCTGTTAGTCAGCGCCCACTCTTTTTTCCTGGTGATTGCGCCTTTGCCGTGTGCTGTGTAAGTGCAGACGATCGGATACGAGTCCCTTTTAAAAGATGATGTAAGCAGGTCATCAAAAAAATCGGATACAGTCCCAAAATCGAAATTGACCATCAAGATCTGCAGTGTAAATGCAGCCCTATATGTGCATATTCTAATTGAGGATTTTTCCAG
Seq C2 exon
GTATAAAAGCGGTTTGGAAAACACCAAGGAGATCCTGGAGGACCTAGGACTAAATCCCAGTGACGATGACTGTATTGCAGTCCAGCATGTCTGCACCATCGTGTCCTTCAGGTCAGCTAATCTGGTGGCTGCAGCTTTGGCTGCCATCCTAACACGGATCAGAGAAAACAAAAAGCTGAAGACCCTTCGGACTACTGTAGGAGTGGATGGGACGGTCTACAGAACACATCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000038703:ENSDART00000056523:8
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:
GGTGAGTGGGATGTACATGGG
R:
CGTCCCATCCACTCCTACAGT
Band lengths:
358-1324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]