BtaINT0065994 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032288 | GCK
Description
Bos taurus glucokinase (hexokinase 4) (GCK), mRNA. [Source:RefSeq mRNA;Acc:NM_001102302]
Coordinates
chr4:77851276-77851677:+
Coord C1 exon
chr4:77851276-77851371
Coord A exon
chr4:77851372-77851577
Coord C2 exon
chr4:77851578-77851677
Length
206 bp
Sequences
Splice sites
5' ss Seq
GGTGTAAGT
5' ss Score
8.07
3' ss Seq
GTCTCTCCACCTCTTGGCAGGAC
3' ss Score
8.18
Exon sequences
Seq C1 exon
GGCATCCTTCTCAACTGGACCAAGGGCTTCAAGGCCTCGGGAGCAGAAGGCAACAACATTGTGGGGCTCCTGCGAGATGCCATCAAGCGGAGAGGT
Seq A exon
GTAAGTGGCACCTGCACCTGCCCCTGTGACTGCCCTGGACCCTCCTCCCCCCGCCTTAGGCCAGGATGCTAGTGAGGGCCTGCTGGGTGTCCCCTCAGGAAGGGGTCTCTGCCTCCTGTGCCTGGCTGGAACGGCTTGGAGCCCACTAAGCTAAGACCCCCACCCCCAACCAGCCTTGTCACCACTGTCTCTCCACCTCTTGGCAG
Seq C2 exon
GACTTTGAGATGGACGTGGTGGCCATGGTGAATGACACTGTGGCCACGATGATCTCCTGCTACTATGAAGACCGCCGGTGTGAGGTTGGCATGATTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032288:ENSBTAT00000045734:5
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(15.0=100)
A:
NA
C2:
PF0034916=Hexokinase_1=PD(11.1=67.6),PF0372711=Hexokinase_2=PU(3.3=23.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCATCCTTCTCAACTGGACC
R:
CCACAATCATGCCAACCTCAC
Band lengths:
196-402
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]