BtaINT0072355 @ bosTau6
Intron Retention
Gene
ENSBTAG00000033398 | HKDC1
Description
hexokinase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23302]
Coordinates
chr28:25762593-25762953:+
Coord C1 exon
chr28:25762593-25762741
Coord A exon
chr28:25762742-25762833
Coord C2 exon
chr28:25762834-25762953
Length
92 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCA
5' ss Score
6.43
3' ss Seq
ATGCTTTCTCTTCCCTGCAGCTG
3' ss Score
11.91
Exon sequences
Seq C1 exon
AAAATGGGGAATTTCTCTCCCTGGATCTTGGAGGATCCAAGTTTCGAGTCTTGAAGGTACAAGTCTCTGAAGAGGGGAAACGAAATGTCCAGATGGAGAGTCAGTTTTACCCAACACCCAATGAAATCATCCGAGGGAATGGCACAGAG
Seq A exon
GTACCAAGGCCGGGGGCTCTGTGAAGGTGGTCCTTGGTACCAAGTTTCTGGATGACCTTAGCCCTGTGTGCTATGCTTTCTCTTCCCTGCAG
Seq C2 exon
CTGTTTGAATACGTAGCTGACTGTCTGGCAGATTTCATGAAGACCAAAGAACTGATGCAGAAGAAATTACCTCTTGGCCTAACCTTTTCCTTTCCCTGCAAACAGACTAAATTAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000033398:ENSBTAT00000047474:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.060 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:
TGGGGAATTTCTCTCCCTGGA
R:
TGCCAGACAGTCAGCTACGTA
Band lengths:
175-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]