BtaINT0065996 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032288 | GCK
Description
Bos taurus glucokinase (hexokinase 4) (GCK), mRNA. [Source:RefSeq mRNA;Acc:NM_001102302]
Coordinates
chr4:77853666-77854923:+
Coord C1 exon
chr4:77853666-77853849
Coord A exon
chr4:77853850-77854767
Coord C2 exon
chr4:77854768-77854923
Length
918 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGG
5' ss Score
4.86
3' ss Seq
GGCTGTCCTCCTCTGCCCAGGTA
3' ss Score
8.49
Exon sequences
Seq C1 exon
GCACGGGCTGCAACGCTTGCTACATGGAGGAGATGCAGAACGTGGAGCTGGTGGAAGGGGACGAGGGCCGCATGTGTGTCAACACCGAGTGGGGCGCCTTCGGGGACTCAGGCGAGCTGGACGAGTTCCTGCTGGAGTACGACCGCGTGGTGGATGAGAACTCCCTGAACCCTGGCCAGCAGCT
Seq A exon
GTAAGGACCGCCCCTCCCCCGACCATGCGGCAGATGGGGCCGGCCCGCAGATAATGGGCTTGTTTTTAAACAGTTCTGGGGAAAAGCAAACTGACAATCTCTTCATAAGCTGGCTCGTTTCTTCCTTCAGCTCAGACACGTGTGCCCCTCTGTGAACCGGACATAATGAGAGATGCCAAGATTAGTCTTTAAAAAGAGGGCCTATGGACAGATGAGCAGGGACTTCCCCTGTTCCAGCAGGTGACCGCTGGCATAGGAAGACTGAGAAGCCCCCAGCAAGGCTGACTGGGCTTAATCAAGAGATCCCCAAAGTATGGCTCTGAACAAGTTACCAGAATGAATTGGAGTAACCTGGAGGATGTTGCAGGTTCAGAGCTTGTCAGGGCTTTCCTTTATCAACTGCCTACTCTGCACCAGGCACCTGAGCTTCTTCTCTGGCTCTCCTAAACCTCGGGGAGGTCGGTAGTATTCAATAAAAGAGGAAAACACTGGAGGCCTACAGACTCTAGGGCTGATGTGCCAACTCGGTGGATTCTAGGCGCACAGGGACCCTAGGAGCCCTAGCAAGTGGGCAGAGGCCTGCTCCAGGCTGGCCACGAGCCCCTCTGAGCCTGAGCTTCCCCAACTGTCTCTGGGTGATGAGAAGAGCTCCTATCACATAAATGCGGGGAGATCGAAGTGGGCTCAGCTCAGGGTCCTTCGGGAGGAAGGTCTTAGAGGGACTGAACTGTGGCCCCACCATGGAGCGTTCTCCCAAGGCCCCAAAAGCCCAGGTGGATTAATGCCGAAATGGGCATGAACCCAGTGTCACAGCGTCCCACATGGCCTCCTTTTGGCTGTGATGGGGCGGTGGCCGATCTCCGTCTGCTCGTGGGGACCTCCCTGCGGGGAATGACTCGGCTGTCCTCCTCTGCCCAG
Seq C2 exon
GTACGAGAAACTCATCGGTGGCAAGTACATGGGCGAGCTGGTGCGGCTTGTGCTGCTGAAGCTTGTGGACGAGAATCTGCTCTTCCACGGAGAGGCCTCGGAGCAGCTGCGCACGCGCGGCGCCTTCGAGACACGCTTCGTGTCTCAGGTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032288:ENSBTAT00000045734:7
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(25.4=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(21.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGGGCTGCAACGCTTG
R:
TCTCCACCTGAGACACGAAGC
Band lengths:
338-1256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]