BtaINT0072361 @ bosTau6
Intron Retention
Gene
ENSBTAG00000033398 | HKDC1
Description
hexokinase domain containing 1 [Source:HGNC Symbol;Acc:HGNC:23302]
Coordinates
chr28:25775858-25777401:+
Coord C1 exon
chr28:25775858-25776091
Coord A exon
chr28:25776092-25777096
Coord C2 exon
chr28:25777097-25777401
Length
1005 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
GCCATCACCCCTGCCTCCAGATA
3' ss Score
7.53
Exon sequences
Seq C1 exon
GTACAAAGAAGGCCTAGCCAATACGAGAGAGATTCTGACAGATTTGGGCCTGGAGCCGTCCGATGCAGACTGCATTGCGGTCCAGCACGTCTGCACCATCGTCTCCTTCCGCTCGGCCAATCTCTGCGCAGCCGCCCTGGCAGCCATCCTGACACGCCTCCGGGAGAACAAGAAGCTGGTGCGGCTCCGCACCACGGTGGGCGTGGACGGCACACTCTACAAGATTCACCCCCA
Seq A exon
GTGAGTGCTAGTCTCCGGCCCACACCCTCCGCAAGCAATCTCCCCTGGAGCAGAGTCCAGTTTTCTTTCTAAACTAGGCTGCTTTTCTGGGTTTCCAGAACCAACCATATTCTATGGTTCTGAGATTATAGAGCAAAGGGTGAATTCAGAGATTACATTCATCTAGCTGGCAGGGCTGCTTTAGGGGATCATTCTTAAAGGAATATTTTGCTAAAGCCAATAGCCTGAACTACCAAGGCCATCCATCTATGTGCTTATCCATCTATCTATCCCTATATTCATCTATCTATTATTGAATACTCACTATGTTAAGATAGGAAAGTAAGATATGTCCAGTTATAAATGGGGCAATAACTGGATGGCAGAGTTTGCCGTGTTCACATGAAGGATACCGGAAGGAAAACACAGAAGTAGGGAGAATGAAAGCCCCTCTGACTAACAGAGGTGTAATTCAGTCAGGCATGTACACCTGGGAAGAGCTGGGGAAAAAACCTTTTCCTTGTGGGCAGAGATGATGTTCAATCAATATATTATGAGTGTATGCATGCTAAATTGCTTCAGTTGTGTCTGACTCTTTGCGACCCTATGGACTGTAGCCCACCAGGCTCCCCTGTCCATGGGATTCTCCAGGCAAGAATACTGGAGTGGTTGCCATGCCCTCCTCTAGGGGATCTTCCCGACCTGGGAATCGAACCTGCAGCTCCTGCATTGCAGGCAGATTCTTTACTGCTGAGTCACCACGGAAACCCATATACTAGTTGTAATATTAGTGATAAAATAACCACTTCTTTGAGGCTTCCAAGGGTCCCTTCCACTCCCTCAGATGACCTGGACCCTACCCTAGTCACCCCCATCATCTCCCTCCATCCAGCAACTAAAGCAGTGAGCCTTGGCCCAGCAGGGCTCCCCAGGATGCTGTCCCACTGCTCCACCTGTATCTGTTTCTATTGGCTGGGCCTGGGCCTTTATGGTTTTTACATATTTTGCCATCACCCCTGCCTCCAG
Seq C2 exon
ATACCCGAAACGCCTGCACAAGGTGGTGAGGAAACTGGTCCCGAACTGTGATGTCCGATTCCTCCTGTCAGAGAGTGGCAGCACCAAGGGGGCTGCCATGGTGACTGCAGTGGCCTCCCGGCTGCAGGCCCAGCGGAAGCAGATTGATAAGGTGCTGGCTCTGTTCCGGCTGACCCAAGAACAACTTGTGGGCATTCGGAACAAGATGCGGGTGGAGTTCGAGTACGGGCTGAAGAAAGATACCCACCCTCTGGCCACAGTCAAGATGCTGCCCACCTACGTCTGTGGGATGCCGGATGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000033398:ENSBTAT00000047474:9
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=FE(32.5=100)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(16.7=38.8),PF0034916=Hexokinase_1=PU(29.3=58.3)
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:
CGGGAGAACAAGAAGCTGGTG
R:
GTAGGTGGGCAGCATCTTGAC
Band lengths:
354-1359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]