BtaINT0072297 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012380 | HK1
Description
Bos taurus hexokinase 1 (HK1), mRNA. [Source:RefSeq mRNA;Acc:NM_001012668]
Coordinates
chr28:25922343-25924312:+
Coord C1 exon
chr28:25922343-25922576
Coord A exon
chr28:25922577-25924171
Coord C2 exon
chr28:25924172-25924312
Length
1595 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
CTATTTTTCGTCCTTTTCAGCTT
3' ss Score
11.44
Exon sequences
Seq C1 exon
CGACCGATTAGCGCTGCTGCAGGTCCGGGCCATCCTCCAGCAGCTGGGCCTGAACAGCACGTGCGACGACAGTATCCTCGTGAAGACCGTGTGTGGGGTGGTGTCCAAGAGGGCGGCGCAGCTGTGTGGCGCAGGCATGGCTGCTGTGGTGGATAAGATCCGCGAAAACAGGGGGCTGGACCGCCTCAACGTGACTGTGGGCGTGGACGGGACGCTCTACAAGCTTCATCCGCA
Seq A exon
GTGAGTGGGGCTTCCATTGGTGGCGGGCGCGTGGGCGAAGCCCCTTTTGGTTCCGGGACACCAGGATGTGATTTCCCGCCCTCCAGTAAAACTCCTCACCAGGAACACAGCCGGCCTGCAGGCTGTGCGGTCGGAGCGGGGCTTGTTTGGCATGAGGAGGCGGGTGCAGGGCGGAGAAGTGGCTTCACTTGGCCAGTTCACCCCGTGGTCCTGACATTTCCTGCTTGCTGCTCCTCCCGGGCCCCTTGTATCCTGGGCGGGGAGCAGGAAAGCAGGAACAGGTGGGCGTGGGCTTACCCATCAGCCTGGGGGAGAAGCTGTTTCTTAGAAGCCAGGAGAGGGAGTGAAGGAAAGGGAGAGGACCCACTGTCTTGTTCTGCTACATCAGTCTGTCAAGAGCCTTGGAAGGCAGGAGCAATCGTGGCCCTGGGCTTTGGAGCACGGAGGCGGGCGGGATCAACCTCCTTTGGGCCCGGTGTCCCACATCCCATGCTGGAGGAGAATGGGTGGGCCCATCTGCTCTTTGACCCGCCGCATGTCTCAAAGCTGGGCTCTTACGAATGGAGTGACCTTATTATTGTCGAAACAGAGGTACTTTGGCCAGTTGAGAGAGGGCTACTAATAATTACAATGGGACCATTCCCCAGTAAACGAGCCATAACGTCACCCTACTTTAAAGCAGGCATACCCAACTCAGCATGAACAGTGCCCGCTTACCTCACGGCCGTGGCTTGGGATGGGACAGGCTGTCTGGCTCCATTTCTTCACCTTTGTCACTGTCCTCCTTGTCACTGTGTTTAGAGCTAGTCTCTGGAGCCCAACGTGGACAGGCTTGGATTTAATCCTGACAGCACCCTTTAGAAGCTGTGCTCAATTCCTTCGTCTCTGTCAAGTCTCCTCTTCTTTGCAGGATAATAACCATTGGCAGACTGGACATTACGTATATCAAGTGTGGGACACCTAGGAGATACTCAGCAGAGGGCAAGCAGTATTACCTCTAGGAGCCCTGCTGCCCTGAGCATTCTCAGCCTGGCCCTATCTCATTTGCACCACAAAATGCAAGAATCCAGAGTCGCTTCTCATTTAGAGATTGTGCTTCACTTGGGGGTGGAAAGGAAGGCTCCCTCTCAGCTTCAGGTGCTGATGGGCTGGGGTCTCAGAGGGCTGCAAGCTAGGGATGGGTGATGTTTGTTTCCATGAAGCCTGCTGAGCTAACACCTGACCTGGCCTGGCGCGCCTCAGTGGTCCACGCCCAGGTCTCGACACCCCCTTCTTGGATTTCGGTCCTCTCAGCTCCTCAGGCTCTGAGGATGGGAGCTGTCTGGGTGTGTTACTCATGCGTTGCCCTCAGGAGCTGTCCAGAGGAGCTCGTTTGGGATTCTCCGTCGTGTCTCCCTGCTGCAGAGTGTAATTAGGTTGGCAGTAAACCTGCTTGCCTCCCGGCCATTCTCAATAAGTCTCTGCTGCTTCAGAGCAGCCCCACCCCGCTCCTTCCTCGCTTCCCTCCTTCCCTTTGGCTGCTTCAGCATCTTCAGGTGGGTCCGGCATCTCTCCTATTCCTCTACCAACCCATCTCTATTTTTCGTCCTTTTCAG
Seq C2 exon
CTTCTCCAGAATCATGCACCAAACCGTGAAGGAACTGTCACCAAAGTGTAATGTGTCCTTCCTCTTATCTGAAGACGGCAGCGGCAAGGGAGCCGCCCTCATCACAGCGGTGGGCGTTCGGCTCCGGCAAGAAATGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012380:ENSBTAT00000016432:17
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=83.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCATCCTCCAGCAGCTG
R:
CATTTCTTGCCGGAGCCGAA
Band lengths:
342-1937
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]