BtaINT0065992 @ bosTau6
Intron Retention
Gene
ENSBTAG00000032288 | GCK
Description
Bos taurus glucokinase (hexokinase 4) (GCK), mRNA. [Source:RefSeq mRNA;Acc:NM_001102302]
Coordinates
chr4:77848338-77849686:+
Coord C1 exon
chr4:77848338-77848492
Coord A exon
chr4:77848493-77849566
Coord C2 exon
chr4:77849567-77849686
Length
1074 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
ACCTTGGTGTTGTCTTCCAGCTC
3' ss Score
9.96
Exon sequences
Seq C1 exon
AAGTTGGGGACTTCCTCTCCCTGGACCTGGGTGGCACCAACTTCCGGGTGATGCTGGTGAAGGTGGGAGAAGGCGAGGCGGGACAGTGGAGTGTGAAGACCACGCACCAGATGTACTCCATCCCCGAGGATGCCATGACGGGTACTGCTGAGATG
Seq A exon
GTGAGCACCCTGGGCTAGGGAACAAGGGGCTGGGCGGGGGGAGGGAGTGCAGGGACCAGGGTCAAGACCATCCAGGATCTTGGAGCTTGGCTTGGTGTTAGGGCCTACCTGTTCATCAAGGGCAGGTGGCTGTGGGCCCAACTTCAGGGGGCCCTGCTACAGGAAAGGGAAGCAGCTGAGAGGCCCAGGTGGATGGCCGTGGGGCATGGCCCCAGCAAGTCGCACCATTGCCCAGTTTCCCAGAAGGGTCAGAAACATGGTAGGGCAGTCAAGAGAACACTCTGGTCCAACAGGCTCACAGTCCATGAATGCATTCTACTTCCTTCCCACGTGGCATTCCCTCACCCTCCACCAACATAGATGCCAGGGGGCATGACTGCAATGATAATATCTGCCCATGGGGAGGACTCAAGAAGGACCACAGAAGTAGAATGAACCCTAGGGGAGGTGGATGGAGCCAGAGCCAATTTCCTTGAGGCACAGGGTTTTAAGAGCCAATTTCCTTGGAATGCTGCAGGACCGGGCGTGCATCCAGGAAGCAGGATAGTGTTGCTGCCTCCCTGGGCCTGGAACCCACTGGGGAGCTTAATCGATCAGCAGGCATTCAGTAACGCCCAGCTCTGTCGACAGGCCTATGTGAGTGGGGTGGTGGCCAGTCCTCCCAGGTCCAGGAGTTGGGTGGCCAGGACACTTGGGAGGCAGCAAAGAACACTTTGGGTGTTGAAGCTAGAAACCATAGTTATAGCCAGGGATACACCTCTGTCCAAAGTCTGAGGCTGGATGCTGCTGGGTCCAGCTGGGAGGGCCAGACTGGCAGAGCACAGCTGCGCTGGGGACCATCCCCATTGTCCTGGCATTGCCTGTCCTGAGGACTGCTGTCAGTGGGACTCTGGCATGGGGGTTGTGCACAGGGCTTGCTTGAGTCCCGAAAAGCAGTGGTGATAAGAAGCAGGGGACTGAGGTCAGGTCCAGAGGCCATGTTTCCAGGGGCCTATGGTTCAGCAAGGGCTGAGAAGCACCCTGGCACAAGGCTCGCCTTCTGCAGCTGATGGCCACCTTGGTGTTGTCTTCCAG
Seq C2 exon
CTCTTTGACTACATCTCTGAGTGCATCTCTGACTTCCTGGATAAGCATCAGATGAAGCATAAGAAGCTGCCCTTGGGCTTCACCTTCTCCTTTCCCGTGAGGCATGAAGACATTGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000032288:ENSBTAT00000045734:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0034916=Hexokinase_1=FE(24.6=100)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(18.8=100)
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:
AAGTTGGGGACTTCCTCTCCC
R:
TCAATGTCTTCATGCCTCACGG
Band lengths:
271-1345
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]