BtaINT0072349 @ bosTau6
Intron Retention
Gene
ENSBTAG00000033398 | HKDC1
Description
hexokinase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23302]
Coordinates
chr28:25782314-25782679:+
Coord C1 exon
chr28:25782314-25782409
Coord A exon
chr28:25782410-25782579
Coord C2 exon
chr28:25782580-25782679
Length
170 bp
Sequences
Splice sites
5' ss Seq
AATGTATGA
5' ss Score
2.55
3' ss Seq
AGAGCTCTCTTCCTTTTCAGGAA
3' ss Score
10.31
Exon sequences
Seq C1 exon
GGAACACTCATTGAGTGGACCAAAGGCTTCAAAGCTACTGACTGTGAAGGGGAAGATGTGGTGGATATGCTCAGGGAGGCCATCAAGAGGAGAAAT
Seq A exon
GTATGATATGGCATTGAAGCTCATACCTGACCTGTCCTTCCCCAAGGCCCCTGTGCTCTGTCATCAGACACCAGCCCTGCGACTCTGGCCTCTGCCCACTTCAGTCTGATGTGCCCCTCTTGAGGCTGGCCTGCACATCCTACTTACAGCAGAGCTCTCTTCCTTTTCAG
Seq C2 exon
GAATTTGACCTGGACATAGTTGCAGTTGTGAATGACACAGTGGGAACCATGATGACCTGTGGCTATGAAGATAGTAATTGTGAGGTTGGCCTGATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000033398:ENSBTAT00000047474:13
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(15.1=100)
A:
NA
C2:
PF0034916=Hexokinase_1=PD(11.2=67.6),PF0399610=Hema_esterase=PU(12.5=41.2),PF0372711=Hexokinase_2=PU(11.1=23.5)
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:
ACTCATTGAGTGGACCAAAGGC
R:
GCAATCAGGCCAACCTCACAA
Band lengths:
189-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]