BtaINT0072308 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013108 | HK2
Description
hexokinase 2 [Source:HGNC Symbol;Acc:HGNC:4923]
Coordinates
chr11:9732474-9732999:-
Coord C1 exon
chr11:9732851-9732999
Coord A exon
chr11:9732594-9732850
Coord C2 exon
chr11:9732474-9732593
Length
257 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
AGCCCAACTTCTCCTTACAGCTC
3' ss Score
8.55
Exon sequences
Seq C1 exon
AGAAAGGAGACTTCCTTGCCTTGGACCTTGGGGGTACCAATTTCCGGGTCCTGCTGGTGCGTGTGAGGAATGGGAAGCGACGCGGGGTGGAGATGCACAACAAGATCTACTCTATCCCACAGGAGGTCATGCATGGCACAGGGGACGAG
Seq A exon
GTAAGACAGGGGCTCCTCTGGGAGGGGACTCCGGGAGATACCCGCTTCTCACCCGGGAGGACAGTGCTTTCTCTGCTTTCTCCCATGGTCCTGGGGAGGAGTAGGTGGGCTAGGGCTCTGGCTGGCCTTTACTTAAGGATGTGCCCGAGCTGGCTTTTCTCTTGGGTAAAGGCCCAGAGCCAGTGTTCTGGCCCTGCTGGGTGCAGCCTGCCCTGGCCCACCCACCACCCCGCTCAGAGCCCAACTTCTCCTTACAG
Seq C2 exon
CTCTTCGACCACATCGTCCAGTGCATTGCAGACTTCCTGGAGTACATGGGCATGAAGGGTGTGTCCCTGCCTCTAGGTTTCACTTTCTCCTTCCCCTGCCAGCAGAACAGCCTGGACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013108:ENSBTAT00000060994:11
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(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:
AGACTTCCTTGCCTTGGACCT
R:
CGTCCAGGCTGTTCTGCTG
Band lengths:
260-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development