DreINT0071925 @ danRer10
Intron Retention
Gene
ENSDARG00000068006 | gck
Description
glucokinase (hexokinase 4) [Source:ZFIN;Acc:ZDB-GENE-060825-204]
Coordinates
chr8:40440256-40440857:+
Coord C1 exon
chr8:40440256-40440410
Coord A exon
chr8:40440411-40440737
Coord C2 exon
chr8:40440738-40440857
Length
327 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
CATGTGTTCTCTTCATCTAGTTG
3' ss Score
8.6
Exon sequences
Seq C1 exon
AGGTTGGTGATTTCCTGGCACTGGATCTTGGAGGGACAAATTTTCGAGTGATGCTTGTGAAAGTGGGTGAGGATGAAGAGCGAGGCTGGAAGGTGGAAACCAAACATCACATGTACTCCATCCCTGAAGATGCCATGACCGGCACAGCTGAAATG
Seq A exon
GTGAGACTAGTGTAAAAAAAAAATCGAAAACATGCAATATTTCAGAGTGATGCCATAATATAGCCACTTTTCAGTAAACAATTCTTTGAGGAGTCATTTATTTTCTTAGTTTGAAGAGTCATTTTAGTCATTTTAATAAACTGTTTTTCACTATAAAGACTCTTTTGTGGGATGAAAATGTGTTGTGCATTTTAAAGATGCTTCATCCATGGCAATAAACCAACAACAAACATTTATTTTTAAGAGTTTACTTAACCTTATCAAATACATGTATTCTGACAATTAAGTCACATTGTTTTCATGATATCATGTGTTCTCTTCATCTAG
Seq C2 exon
TTGTTTGATTACATTGCCGGCTGCATATCTGACTTCCTGGACAAACATAATCTCAAACACAAGAAGCTACCACTGGGATTCACCTTCTCTTTTCCAGTGCGTCACGAGGATTTGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068006:ENSDART00000085559:3
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(24.6=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(18.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTGGTGATTTCCTGGCACT
R:
TTGTCCAAATCCTCGTGACGC
Band lengths:
273-600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]