DreINT0071924 @ danRer10
Intron Retention
Gene
ENSDARG00000068006 | gck
Description
glucokinase (hexokinase 4) [Source:ZFIN;Acc:ZDB-GENE-060825-204]
Coordinates
chr8:40438160-40440410:+
Coord C1 exon
chr8:40438160-40438322
Coord A exon
chr8:40438323-40440255
Coord C2 exon
chr8:40440256-40440410
Length
1933 bp
Sequences
Splice sites
5' ss Seq
CCGGTAAGA
5' ss Score
10.1
3' ss Seq
ATTCATGTGACTCATCTCAGAGG
3' ss Score
3.91
Exon sequences
Seq C1 exon
GTGGACCAAATTCTGTCTGAGTTTGTGTTGAGTAAAGAAGAGCTGGAGGAGGTGATGAGGCGAATGCGGAGAGAGATGGAGAGAGGACTGCGTGTGGAGACACATGATGAAGCCAGTGTCAAAATGTTGCCCACGTATGTCCGGTCCACACCTGAAGGCTCCG
Seq A exon
GTAAGAGTTCAGATCCTCATGCTGGACAGTGAATCTTACACTTTAAAAAAAAATTATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATATTTTTTTTTTTTTTTTTTTTGCTGCCTGTTTAAACTACTAATTTAAATTAGCTGGCTTTGACGTCAATTAGATTAATTTAGTTGATTTGTGTTGGAACAACATGGATTTGTTGGGAGCCCAGCATTTTTTTACTTTTGTAAAAAGTGAGTAAACCAACTGCCTTAAAAGCAACAAGTTGACTTTACAAAAAATAATGTAAGTAGACCCATTGTAACTTGGAATTGTTAAGTTGACTTAGTTTGTATGATTATGCAAATAGTACTCACTTTTTAAAAAATAAAAGTTAACTAAGCACTTTTTTCTGATAAACCAATATTTACTTATTGTTTTTTCCCCCAGCTTTACTGTATATAGCAAAATGACATACAGTAAAATAAATCTGCTTTGCCAGACAGTGCACTTATATATTCAACACAGTCTATAATTGTAGAATTTATAAACTTAATGAAGCACCAAATATTTAATATTTTAATAATTACAGTAATCATTTGAAAGCAGAAGTGCTAAAATAATCTGACTTTGTAAAAAGGGATTAGTTGACTTTAAAAGTGAGCTCAATTATCATAATTATAAAAATGAAGTCAACTTAACAGTTCCAAGTTATAATAGGTTTATGTACATTATCTTTGTAAAGTCAGCTTGTTGCTTTTAAGGAAATTGGTTTACTTGGGTTGAGTAACTAGTCACTTTAAAAAAAAAGGCAGGGTTCCACACAATTCCTTTATGTTGACTCATCACAAATCAATTAATTTAACTTAACACATTTAAGTGGATTGAACATAAAACAATTGTTTGACAAAGAAAAAACTCAATAATTGTGTTGTTTGAGTTCATTTGAAATAAGTAGTTTGAACAAGCAAGAAAAAACGTATCTTTTGTGTAAAATAAAGAATGTTTACTGAAATCAATGATTCTATGAAGTACTTTGATGTAACTTTAAGAACTATTTAGTGAAAAGTACTGTTGTTCTGGGAAGCCAAAATTCTGATTCTGTGTTATCGTGAAGAATATCCCCGATCCCTTATTTCAAATAGTCAGATCAAACTAAAGTGTACTGACTGGTTGTACTGTATGTTTATTAGTATAGCTTATAAGATGCATTTTATATTTTATTAACATACAATGTAAATTAATAATAATAAATTATATTGTAATAATCACTTTATTGATAACTTAATGTTTAACATAATATTTTGTATCTAATGTTGTTATTACATGCTTATGTCAAAGTACACAAACATATTTTAATAGTGTTTTTAGCTTTTTTGTCCATATGGTAATAGTCAAAATAAAATTGGACCCCAATAACTTTCTTTGTGTGAACAAAATCAGCCTTTTTTATGACAAAATAGATTTAGAATATAGGTTTAGAAAATCACACAACTTTAAAAGTCTGTATTTTGCTTATGTATATTCATTTTCTTACTGCATGTGTATATAAATACTGTATATATTTGTTCATGTTGTTATGTAACACATAATTAGCATCCTGTTGGAAAAAAAGTATATTGTTTTGTTACAAAAAATAATTTAATTGGTTTATTAAATGAAGAGAGATTTTTCTTGATTTACTAAACGATGAAATAAATTCAATTTAGAAAATAAAATGTATAACCTAACCCTAATAAAAATCATTAGATTAACTGTTCCTTTAAGTTGCATGAAACGAAACAGGTTAAGGTAAATAAATAGATGAGTGCATTATTGGAAACGTCCAGTGATCTACCTTTTTCCTGGAATGGTCTGTTGATTAGTATGAGTCATAATGTTGCTGATTCTGATTCATGTGACTCATCTCAG
Seq C2 exon
AGGTTGGTGATTTCCTGGCACTGGATCTTGGAGGGACAAATTTTCGAGTGATGCTTGTGAAAGTGGGTGAGGATGAAGAGCGAGGCTGGAAGGTGGAAACCAAACATCACATGTACTCCATCCCTGAAGATGCCATGACCGGCACAGCTGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000068006:ENSDART00000085559:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.164 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034916=Hexokinase_1=FE(26.1=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(24.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGACCAAATTCTGTCTGAGT
R:
CATTTCAGCTGTGCCGGTCAT
Band lengths:
318-2251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]