RnoINT0070949 @ rn6
Intron Retention
Gene
ENSRNOG00000046891 | Hk1
Description
hexokinase 1 [Source:RGD Symbol;Acc:2796]
Coordinates
chr20:31916642-31917975:-
Coord C1 exon
chr20:31917792-31917975
Coord A exon
chr20:31916798-31917791
Coord C2 exon
chr20:31916642-31916797
Length
994 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATG
5' ss Score
8.99
3' ss Seq
CTCCCTTCCTCTCGACTCAGGTT
3' ss Score
9.87
Exon sequences
Seq C1 exon
GGACGGGCACCAATGCCTGCTACATGGAGGAGATGAAGAATGTGGAGATGGTGGAGGGGAACCAGGGCCAGATGTGCATCAACATGGAGTGGGGCGCCTTCGGTGACAATGGGTGTCTGGATGACATCAGAACAGACTTTGACAAAGTGGTGGACGAATATTCTCTAAACTCTGGGAAACAAAG
Seq A exon
GTAATGAGCCCGCCAGGAGGGAGTCTGCACAGGGCCTTGGAAGTCCACCCCTCTGGTATAATCGGGTTTTCCATTTCTGGAAGTGACTGAGACAGTGGACACGCCGCCTCGTTTGCCCTTCAGGGTCTGAAAGAGGGAGACTCCCTTCTCACGGCAAGATCCTGCACCCCCTTGTGGCTCCTCAGAGTTTTGCAACTCAGGTCACAGACTGGTTCTGAAATGGCAGTGTCCACTTACAAATGAGGTGCCTGCCCCAGTCGCCCAAGAACGAGGTTCTTGTTCACTGACGTAGCCAGGACGAGATAGTCCAAGTTATGTGCTTTGGAAAATAAATCGGCTTCAGTTTAATCCTGAAAGTGTTGCGGCTCTCCCGGCTTGCCCCACGCCGTGCTCAACCAGAATTCTGTTAACGACAAAACCATCAAAAACAAACCAACCAACCCAAACCATCAAAAAATGAATATAAAAACCAAAGAGCCTTCTCTCTCTACCCATGTAAGACTCCGCTGAGATTTTTGCTTAGTCTGGAACTGCTGAGGGCCTACTGTGCTGGGCTGTGACGTCTCATCGAGACACCCACTCCCTGTCTTCCCAGGACCAGGAGTCACTGTGGTGGTGGTGGTGGTGGTGGTGGTGAGAGGGAGGGAGCCTGTGTGCGCTCTGTAAAAGGGTGAGGTGTGAGAGAGGCTGGAACAGGAAGAGGACCAGGCTGCAGTGGTCCTCTCTGGGTTGTGGCCTGTGGCTAAGAGCAGAGTAGAAAGGGCCAGACAAAGACAAGGAAGGAGGCCACCTAACACAGCTCTGTGGCTGCTGGAGGCATCAGTGTGGGGAGGGTGAAGGGCTTCTTAGGTCTCCGTCAGCCCCGTCATCGAGGCACAGGACAGGCATGTGACTGAGATCATATCCTCGATGGGGCTGTCATGGGTCTGGAGTGACTGTGGGCCCGAGGGCGAGTGGTCCTCCTGCTTATCACCCTCCCTTCCTCTCGACTCAG
Seq C2 exon
GTTTGAGAAAATGATCAGTGGGATGTACCTGGGTGAGATCGTCCGTAACATCCTGATTGACTTCACCAAGAAAGGCTTCCTCTTCCGGGGACAGATCTCCGAACCACTCAAGACCCGAGGCATCTTTGAGACCAAGTTTCTCTCTCAGATTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046891:ENSRNOT00000072429:19
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
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCAATGCCTGCTACATGGA
R:
TCTGAGAGAGAAACTTGGTCTCA
Band lengths:
326-1320
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]