BtaINT0072347 @ bosTau6
Intron Retention
Gene
ENSBTAG00000033398 | HKDC1
Description
hexokinase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23302]
Coordinates
chr28:25778975-25779339:+
Coord C1 exon
chr28:25778975-25779120
Coord A exon
chr28:25779121-25779219
Coord C2 exon
chr28:25779220-25779339
Length
99 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
TGCTCTCTCTCTCCCTGCAGCTG
3' ss Score
14.22
Exon sequences
Seq C1 exon
AGAAAGGAAAGTTCCTCGCCCTGGATCTGGGGGGAACCAACTTCCGGGTCCTCCTGGTAAAAATCAGAAGTGGACGACGGTCAGTGCGGATGTACAACAAGATCTTCGCCATCCCCCTGGAGATCATGCAGGGCACGGGTGAGGAG
Seq A exon
GTAACTGCCGGCCGGGGGTTCACCCTCCAGGGGGCCAGCCTGCCATCCACCCCGTCCAGTGCACGTCCAGTACGACTGCTGCTCTCTCTCTCCCTGCAG
Seq C2 exon
CTGTTTGACCACATCGTGCAGTGCATCGCCGACTTCCTGGACTACATGGGCCTCAAGGGAGCCCAGCTGCCTTTGGGCTTCACGTTCTCATTTCCCTGCAGGCAGGCGAACATTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000033398:ENSBTAT00000047474:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034916=Hexokinase_1=FE(23.4=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(19.0=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:
ATCAGAAGTGGACGACGGTCA
R:
TGAGAACGTGAAGCCCAAAGG
Band lengths:
174-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]