Special

GgaINT1014839 @ galGal4

Intron Retention

Description
hexokinase-1 [Source:RefSeq peptide;Acc:NP_989432]
Coordinates
chr6:10490844-10492894:+
Coord C1 exon
chr6:10490844-10491027
Coord A exon
chr6:10491028-10492738
Coord C2 exon
chr6:10492739-10492894
Length
1711 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
GCTGCTGTCTTTCCTTGCAGGTA
3' ss Score
12.85
Exon sequences
Seq C1 exon
GAACTGGCAGCAATGCCTGTTACATGGAGGAGATGAGAAACATAGAGATGGTGGATGGTGAGCAAGGACGGATGTGTGTGAACATGGAGTGGGGAGCTTTCGGGGATAATGGATGCCTGGACGATATCAGGACAATATATGACAAAGCAGTTGATGACTATTCACTAAATGCTGGAAAGCAAAG
Seq A exon
GTACTGTGGGATAAATGCTGTGCTGAGAATAAGCCAGGCTGCCTCAAATGCTTTTAAGGGAGAACTGGATTTCTCCCACGTCTCAGAAAGGAGAGGTTAAGAGTGGAGGATGACTGCAGCCCTTCTGTCCTGTGTGATTTCCCCCTTCTCTGCTTCTCTTTTTCTGGCCTCCAAGAGGGCAAACATCTCTCATCTTCTAATGTCTTCTATATTGACAATTGAGGTCCTAATCGTTGCCAAGCTGTTCTGCAGCAGCATCTCTGTGTCTTCTTTACAAAGCCCTAAGTTCATTTAACTACTATCAAATTCCTCTGCCAGCCCTTTGGGTGGGCAGAGCCCTTATGTCCACTGAGCATCTGCCCAGAGCTTGTTTGCTGCCATGGAACTGTGGTGCAGGGTTTTTGCTGAGAGCCTCAGGAGTCTTCTCATTACTGAGACACCCTGTTTCTCATCCCATGTTGTATGCAGGGTTTTAAGATGGCTTGTCATTCTTGTGCTCTTGGTCTCATCTCTTTTAGCTGAACTCTCTCTGTAGGGAGCTCTGCCTCTTGGAATCGTAGAATCAAAGGATGGCTTGGGTAGGTACAGACCTCAAAATCATCCAGTTCCAACTTCTTTTCCATAGGGCTGAAATCTCAGCCTAAACCCGCTGGCATGGTTTGGAGCTTGAAGCTGATCACTGTAATGCAGTTATGAGCTCTGTATCAGTTGCAGCCAATTCTTATTCGAGGCAATTTTCTGGGTAATGTGGTGCATTAGAGCACCTGCCTTTCTTGGCCCCGTTTTGGGGACCCAGCTCGTGTGAGCAAATGTTTCCCTGTGCCCTGCAAGAAAGGGCTGACAAGGAGGTGCACCCAGCACGGCATTACTGTGCTGACACACGTGCTGCCTCATGCCCAGGCTGCTCTTTTTCATTTCTCTGCGGCAATGCATAAGAAAATTGTGCAAATAAAGTAGATCTGCCTAGGAACCTCGGGGATGTGGGCAAGTAGGCAGGTCCCTTGGGAAGCTTTTGGGAGGTTAGGGCACAAATGGACGCAGAGGGGCGGACACTGAGTGAGGCTGATGCAGCGGTGGAGCTGGCATAAAGTAAGCAGCCATACGTGGGAGGCTGCCAGGGGGAATAATTGATTCCAGAAAGAGTTGGGCACTCAGGAGGAGGGCGCTTACTGGGTACAAGCCTGGGAGAGCTCCTGGTATTAAATGGACTGCGTGGCCTGCTTCCAGGTGGCTGCTCCGCTGGGCTCAGTTCCTTCCAGGGCAGAAACCCTGCTTAGAGCTTCAGGAGATGAAATAAAGGATGCATCACTGAAAGCACTTTTCACTAAATGAAAAAGTGTTCAGTTCTCATTGCTAAGGGCACAGCTTGGTTACAGAGCACAGAATGCTCCTTTCACACCAGAATGATGCTGGAAGGGAAGGAGAGCCAAGCAGACTCCTGTCTTCAGCACAGGGCTGCCCACGGCCACATAGAGCACCACTACTTGGTGTGTGCTGTCATTAACAACTGCCTGGCTGGGGGAAAATGGACACAAGGAATATGTGAGGTACTTTTAGACGGACTCACAAGGTTTCCCACTGAGCGTTTGTGCTTTTCCTTGCCATAATAAATGACTGTTCTTTTTCAATTGGTTTGTGTGTTCCGTGCCCTATCTGCATGTGTCCCTCTGTCAGGTGTCCCCCTGAGCCATGCTGCTGTCTTTCCTTGCAG
Seq C2 exon
GTATGAGAAGATGATCAGTGGGATGTACCTGGGGGAAATAGTCCGCAATATTTTGATTGACTTCACCAAACGAGGGTTCCTGTTCAGAGGACAGATCTCAGAGACTCTGAAAACCAGGCATATCTTTGAAACCAAGTTCCTTTCACAGATTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:15
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


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCAATGCCTGTTACATGG
R:
AGGAACTTGGTTTCAAAGATATGCCT
Band lengths:
319-2030
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]