Special

RnoINT0070952 @ rn6

Intron Retention

Description
hexokinase 1 [Source:RGD Symbol;Acc:2796]
Coordinates
chr20:31912262-31914303:-
Coord C1 exon
chr20:31914070-31914303
Coord A exon
chr20:31912410-31914069
Coord C2 exon
chr20:31912262-31912409
Length
1660 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
CCCATCATTCGCCTTTTCAGCTT
3' ss Score
8.55
Exon sequences
Seq C1 exon
TGACCGGTTAGCGCTGCTCCAGGTGCGGGCCATCCTTCAGCAGCTGGGTTTGAACAGCACGTGTGACGACAGTATCCTGGTCAAGACCGTGTGTGGGGTGGTGTCCAAGAGGGCGGCTCAGCTGTGTGGTGCCGGCATGGCCGCCGTGGTGGAAAAGATCAGAGAGAACAGAGGCCTAGACCATCTGAATGTAACTGTGGGAGTGGATGGGACGCTCTACAAACTTCATCCACA
Seq A exon
GTGAGTATGGCTTCCTCCTGGCTGGGGAGTTGGTTGATGGTTACAGAGTGTTGACATAATTCCTCACAGAGGGAGGCACAGCAGCCTGAGGCATTTGGGGACAGGAGCCTGAGGCCATGAGTAGCCCTAGTATTTGAAGGGACTTCGGGGAGATAGAGAAGGGCTTCAACTGAGTCAGCTCACACTGTCAGGAGGTAGGACTCCCCCTGCTTCCTTTTGGCCCTCTGAGGTGTATATGCAGTTGTGTTATGTGTGTACACATTGGCCAGCTGTGCTTGGTAAAAAGAAATTCAGAACCAGCAAAGTGAACTGTTGTCCCTTAGAATAGGAGCAGTGTAGGCCCGGGCTCTGGTGAGGAGGAACCTTATCAGAGTTGTAAACCCTGTACTTGAACCCATCATATGTTCCAAAGCTGGGACCGTAGGGACAGTGACCATGCCTGAACAGAAGCCCCGTGTATTAGCATTCTATAGAGGAAGGGAACCGACAGAATGAATCTATATTAAAAGTACATCCGGGGTNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGGCCATAAACCAAGGCCCTGGGTTCGGTCCCCAGCTCCAAAAAAAGAAAAAAGAAAAAAAAAAAAAAAGTACATCCGTCTGTCCAGCTAATCCCACAATGGCTGCCTCTCAACATAAAGTATCTGAAAGTTGTTCAGTCCAGGGGGCTGGACATCTCAGCTGGTCTTCAGTCTGCATTGGAATCCCGAAGTCGTCAAACCGGATACCAGTGAAGGGATGCCTCAGCAACAGGGTGGATGAACTTGCCAGTGGGAGGGGTGTAGGGGACAGGCAAAAAGCAAAAGCTTCCTTCCACGACTTTTTCTGTGTGCTGTCACCAGAAGATGTGGCTCAGATTTAGGGGGAATCTTCCCCGCCCTCTCAAATCATCCAGGCAAGAAAAAATCCTGCATAGGTGTGCCCGATGCTTGGGATTGAGTTAATTGCAGATGTAGTCAAGTTGGCAACCAAAATTAGCAATCACGCCCCCTTAGCAATAAAAAGAACACAGTTAGTTACCGGAGACCATCTCAGCCAAACCGGGCCACAGGCTGACCCAGTGCCCTGGAGCCATCACTCAGAAACTGTGCCCATCAGGGTTGTGGCTCAGTGGATAGAGTGCTTGCCCCTCCTTATGAAGCTCAGGATTCTCCCCACAGCACAACATAAGCCAGGCATCTGAGGGGGTTTGAAGCTGCTCTGGACTGCCATTCTTCATAGATTCCAGCTCCTGACTGGACCAGAATTTATGTGTATCGAGTGTCACCTATCAGTCCTAGCCACGTTATGATAGAATTTTTATACAACTTTTTGTTGTGTCTTTTTTTGAGGCAGAGCCCTGTAGCTCAGGGTAGCCTCCAACTTAATATGTAGCTGAGGGGGTCACCCTTGAATTTATAGATCTTCCTTACCTCCATCTCCTCCGTGATGAGAATCAGATTCAAGGGCCTGGGCCTCCTGAGAGCTTAGGCAGGCACTCTACCGTCTGAGGTGTCACTGAGCCAGCTGGGTTTACAGCCCCTTCTCACCCCTTTCTCTAGCACATCTTTCTAATTTCAGTTAGAAATTCTCCCAGTTCTCGAGCCTCATCTTCTACTGACCTCCCCTCCCCCATCATTCGCCTTTTCAG
Seq C2 exon
CTTCTCCAGAATCATGCACCAAACTGTGAAGGAACTGTCACCAAAGTGTACCGTGTCCTTCCTCCTGTCTGAAGACGGCAGCGGCAAGGGGGCCGCCCTTATCACAGCTGTGGGCGTGCGGCTCAGAGGAGACCCTTCGATCGCCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046891:ENSRNOT00000072429:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact

Alternative protein isoforms

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=80.0)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
LOW PSI
(hk1)
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCAGCAGCTGGGTTTGAA
R:
ATCGAAGGGTCTCCTCTGAGC
Band lengths:
342-2002
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]