DreINT0078088 @ danRer10
Intron Retention
Gene
ENSDARG00000038703 | hkdc1
Description
hexokinase domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-030131-9801]
Coordinates
chr13:22892203-22892659:-
Coord C1 exon
chr13:22892511-22892659
Coord A exon
chr13:22892323-22892510
Coord C2 exon
chr13:22892203-22892322
Length
188 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TTATTTCCGTTTAATTTCAGCTG
3' ss Score
8.15
Exon sequences
Seq C1 exon
AAAGGGGAAAGTACCTTGCTTTGGATCTTGGTGGAACCAATTTCCGCGTGTTGGTGGTTAAGATTCGGACTGGCATGCGAAATTCAGTCCGGATGTACAACAAAATTTATGCCATCCCACTGGAGATTATGCAGGGCACAGGAGAGGAG
Seq A exon
GTAAAACACTATAAACAAATATGTTTTCATTATTTTTGTACAGTTAACGATGTATGTATATTATAATAATGTATATTATTACCATAATATACCCTATTTCATTTTAACACAATTTATATAGTCCAAAAAACTCAGCACAATAACAAGAATTTATACTGACCTATTTATTTATTTCCGTTTAATTTCAG
Seq C2 exon
CTGTTTGACCACATCGTTCAGTGTATCTCAGATTTCTTGGACTATATGGGAATGAAGAACACTCGTCTGCCACTTGGCTTCACCTTCTCTTTCCCGTGCAATCAGACAGGTATTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000038703:ENSDART00000056523:11
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=FE(23.8=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(18.9=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:
TGCTTTGGATCTTGGTGGAACC
R:
CCTGTCTGATTGCACGGGAAA
Band lengths:
243-431
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]