RnoINT0070976 @ rn6
Intron Retention
Gene
ENSRNOG00000006116 | Hk2
Description
hexokinase 2 [Source:RGD Symbol;Acc:2797]
Coordinates
chr4:113570293-113571960:-
Coord C1 exon
chr4:113571727-113571960
Coord A exon
chr4:113570598-113571726
Coord C2 exon
chr4:113570293-113570597
Length
1129 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
ATGGTCTCTGTGTATAACAGTTT
3' ss Score
6.47
Exon sequences
Seq C1 exon
GGATAAGGATGGAATCGAGAAGGCCTACCAAATCCTGATGCGCCTGGGTCTGAATCCATTGCAGGAGGATTGTGTGGCCACGCACCGAATCTGCCAGATTGTGTCCACGCGCTCGGCCAGTCTGTGCGCAGCCACCCTGGCCGCGGTGCTGTGGCGAATCAAAGAGAACAAGGGCGAGGAGCGACTTCGCTCCACCATCGGTGTCGATGGCTCCGTCTACAAGAAACATCCCCA
Seq A exon
GTGAGTGTGCTGCCCCGGGCTGGGGACAACGGAGTCCCCTGGAGACTCCATGAGGCAGTTCAGTACTTTCCATATAGCTTAAGTGTTCTCTAGTGGACACTGTTGGTGTGGGTGCGTTTGCTTTCTGAAGGCAGCTGGTGGCTTGCACATCACTACATCCCCAGCCACGTCCCTCTCTACTTATGAGTTACTGATTCATTCCTTGGTCTTCCATTATTCTGGCTGGTTCATCTGGATACCCTACCCTCTGTTAGTGGCCATCCCAACCTCGAAGACGCCAGCCTCTCCTTATTTTGGTGTCGAATTGTTTCTGCCCCTTGTATTCGTATATTCCAAAATATCTCGACCAGGATCCAGAAGATGTCTCTTGTGCTCACTTAATTGCCCATTGTTTTCTCAGTGTGTGTGCCAGGGCAGGGCACCTTTATTTAAGCCAGCTGGTGACTGCCATCTGGCCCGGAGATCGATCCCTAACTTTCCAGCCCAGGGCCGTAGGAATATGAATAACCTGGGAATGTGGTTAAGAGGCCGGTTCCGGCTCAGTGACAGGGCGAGGCTGCTTGCTATCTGTGTGGGTGTGGGTGGCCTGGGAGAGGAACCTTGGAATAGCTGTGTTGTGCTCTCCTCAGTAGTCCGCTCTCCCTGGAAGCTGCAGGAGGCCACCACCCAAGAGCCTCCCGCTAATTAAACATCCTTATAGTCTCCAGTTGTCCAGATGGTTCTGAGAACAGCTGCAGGAACTGGAAAGAGAAAGGCCAGAGTCCAAAGAAAGATGCTTCCAAGCTTTTTATTGAGTTTTCCTTGGGGCATCAGATTAATTGAGGCTGGGTCTCCAGGAGCATCAGGGACATTTGGTTACAGTTGCCCTAGCAGAGCCTGGCTCCATCTGCTACACCGAGGAGCTGTATAGCCTGTTCCATGAGGAAGAGCGGGTCTGTGTGACTGCATTCAGGGGGCAGTAGCTTTAGAAGGACCAGCTTTGGCAGCCATGATTGAATAGCTGGGTCTTTATACAGTAACCCTAAGATGGGGAGAAATGGAGAGAGAAGATACGGACATCATTTGCTTCTGCAGGGGCATGGTCTGCTCTATGGCCGCCATTTGTAACCATGGTCTCTGTGTATAACAG
Seq C2 exon
TTTTGCCAAGCGTCTCCATAAGGCAGTGAGGAGGCTGGTGCCCGACTGTGATGTCCGCTTCCTCCGCTCTGAGGATGGCAGCGGCAAGGGGGCTGCTATGGTGACGGCGGTGGCTTACCGTCTGGCTGACCAACACCGGGCCCGCCAGAAGACCCTGGAGTCTCTGAAGCTGAGCCACGAGCAGCTTCTGGAGGTTAAGAGAAGAATGAAGGTGGAAATGGAGCAGGGTCTGAGCAAGGAGACGCATGCGGTCGCCCCTGTGAAGATGCTGCCCACTTACGTGTGTGCCACTCCAGATGGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006116:ENSRNOT00000008813:9
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=0.010
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(29.1=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:
ATTGCAGGAGGATTGTGTGGC
R:
AGCTTCAGAGACTCCAGGGTC
Band lengths:
348-1477
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]