BtaINT0072346 @ bosTau6
Intron Retention
Gene
ENSBTAG00000033398 | HKDC1
Description
hexokinase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23302]
Coordinates
chr28:25777097-25779120:+
Coord C1 exon
chr28:25777097-25777401
Coord A exon
chr28:25777402-25778974
Coord C2 exon
chr28:25778975-25779120
Length
1573 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
CCTCACTTCCTCTACCACAGAGA
3' ss Score
7.15
Exon sequences
Seq C1 exon
ATACCCGAAACGCCTGCACAAGGTGGTGAGGAAACTGGTCCCGAACTGTGATGTCCGATTCCTCCTGTCAGAGAGTGGCAGCACCAAGGGGGCTGCCATGGTGACTGCAGTGGCCTCCCGGCTGCAGGCCCAGCGGAAGCAGATTGATAAGGTGCTGGCTCTGTTCCGGCTGACCCAAGAACAACTTGTGGGCATTCGGAACAAGATGCGGGTGGAGTTCGAGTACGGGCTGAAGAAAGATACCCACCCTCTGGCCACAGTCAAGATGCTGCCCACCTACGTCTGTGGGATGCCGGATGGCACAG
Seq A exon
GTGGGCCCTGCACCACTCCCTTCTCTGATGGGCCACCCGGAGCTCCATCCAAGCTCCTTAAACCCAGTTAGGATCTTTGTTTCAAGAGCCTTGTGTTCGTCTCTATAATGGAGGGAGGGAGAGTACTCTGCTGAATCTGTTCTTTGGTTGATCCAGGGCACTGGCAGTGAAGAATACCTAAGTTAGGTTCCATGTGTGTGAAGACCCAGATGCTGTCCCCGGGAGCTACCATCTGGACACGTGGCATGTCTGGCTGGTCTTCCTCCCTTTCCTCCAGCTTTCTTCTCTCCTGGGGCTTGGCTGTCTTCCTCTCCCCTCTCTTCATTTTCTGCCCCTGACTTTTTGGATACTTGATCCTTTTCCTGGTCCTCTGTGCTCAGCTGACAGGAGCTACAGAACAGTGAAGTCAGTTCTTTAGACAAGTAACTCATCTCTTTGCATCTCGTGAATCTCACCGAGATATACTGATCTTTGTAAAATGCTTCATCTCTTTAATTTGCTTTTGACTCTTTAGTTTCATTTTGTGCTCACAACCACTCTGTATGTTATGTAAAGAGAGAATAATTCCCATTTTATGGATGCCAAAACGGAGACTCAGAGAAGTTAGGTGACGTACTTAGGGTTACACAGCTGTACTTGGAGTCTCTCAACAACAGAGATCTTTTCCAGGGCCAGTATCCTTCGAGTCTACTTGGGGGAGAAAATGAGAGCAGGAAAAGACACTATTCAATTATTCATTCTTTCGTCTCTTTTTTCCTTTTGCCTCCATTCCTCAAAGTTTCATTAAGTACCTGCTATAGGTCAGGCTCTGTTGTGGGCACAGGGACAGAGCAGTAAAGAAAACACAGTCCCTGCCTTTATGGAACCTTTGCTCTGCTGGGCTGACAGACAGTAAGCAAATAAACACCAGATGATGCCATGTCATAAAGGGCTATGAGGACAAATAGAGCAGAGTCAGAGGTAAGAGAGCTGGCCGGGTGTGAGGGCTTCGGCAAATTCAAGGAACAGTAAAATGACCAGTGTGATTAGAACAGAGTGAATGAGGCAGTCAGCGAGAGGAGGGACACACAGAACAGACTATGATGCCCTGAGATGTCAGAGAAGCAAGAGGCGCTGCCCTGGGTAGTAATGGGTGTTGGACTTGATATGGTTTCTTATCAGTCTGGTGGGGGTGTGGGAATCCAGGGATGGGAAGAGCGGAACAGAGATCATTTCAGGCTGGGGATGAGCAGTTCCTCTAGGCCCTGCAGACAGAATGGACGCACCTTCCCGAGTCTACTGTAGTCAGGTAGCCTGACCTGGATTCACCCTCAGAGGTTCCTTGAGTATAAGTATCATGCGTGGCTGTTAGCAGACACCAAGGAAAGCAGGCTGGCCTCAGATGGGCTCAGGATGCCCGCCCAGGGCTCTGACACCATGCTTGCTGACCAGCACGCCCCTTTGGCCCCCGAACCTCAGGCCAACAGGCTCTAGGCCTGCTCTCTTTCGGCATCTCTTCTTCCCCCAATGCCTGCACACGAGGCCCTGCTTAGTGCATGCTGGTGGAACGCCACCCTCACTTCCTCTACCACAG
Seq C2 exon
AGAAAGGAAAGTTCCTCGCCCTGGATCTGGGGGGAACCAACTTCCGGGTCCTCCTGGTAAAAATCAGAAGTGGACGACGGTCAGTGCGGATGTACAACAAGATCTTCGCCATCCCCCTGGAGATCATGCAGGGCACGGGTGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000033398:ENSBTAT00000047474:10
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:
PF0372711=Hexokinase_2=PD(16.7=38.8),PF0034916=Hexokinase_1=PU(29.3=58.3)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(23.4=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:
TGCACAAGGTGGTGAGGAAAC
R:
TTTACCAGGAGGACCCGGAAG
Band lengths:
352-1925
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]