GgaINT1014848 @ galGal4
Intron Retention
Gene
ENSGALG00000004222 | HK1
Description
hexokinase-1 [Source:RefSeq peptide;Acc:NP_989432]
Coordinates
chr6:10484509-10486326:+
Coord C1 exon
chr6:10484509-10484664
Coord A exon
chr6:10484665-10486092
Coord C2 exon
chr6:10486093-10486326
Length
1428 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGT
5' ss Score
8.4
3' ss Seq
TTACTACCCTTTCTTTGTAGGAG
3' ss Score
9.8
Exon sequences
Seq C1 exon
GTTTGAGAAGATGGTCAGCGGGATGTACATGGGGGAGCTGGTGAGGCTCATCCTGGTGAAGATGGCCAAGGAGGGACTGCTCTTTGAGGGGAGAATCACCCCTGAGCTTCTCACCAAAGGAAAGTTTGAGACAAAGCATGTTTCTGCCATAGAAAA
Seq A exon
GTGAGTACTCCCTTCTGCTCCAGTTTCCAAATGACTCTGAATGTTAATTTTCCAGTCTCTCTTTTTGCTTTGTTGTGGAATGAGCTGTACTGGAGATGGCAGCCATCCTCCAGCATGGGTGTATATTGAACATGTGAGGATCCACAGGAGGCAGCCAGCACCCTTTTCCCAAAGCCACCAGCCTCTCTGAGCTGAGAGGCAGCAGATTTCTCCCTCTATGTGGTTTGGGAGGCAGGATGAAAGTCTGACCATCCACGCTGCTACAGCGTATGTACTGTGCTCTACCACTCACCCAGCTTGCGAAGACCTAAAAGTTGCTACCCTGCAGCTAAATGTGGGAGTGAATTGGCTTAGTGCCTCCTCCCAAATACTTGTGTTGCTTCTTGCTGTATCCACGGGATCGCTGGGCAGCAAGAAAACAAGTGTGACAAGGCAGAGCATTCAGTCTCGTAGGCAGTGCTGGGCGACCTCTGAGCTATGCGCCAGTTGGTTTCTTACAGTGTCATCACCCTTTCGGTCAGTGCTTACTGGCTCTGTCCCCCACGTTCTTAAAATTCACATCACTGGGGTAATTGTGCTGTAGTGATTGGGCCAGCTTTTCTCTTTGAAAAGCTTCCGATTTCGGTGCCCGTGTACAAAGGTACTGTTGATTGTGAGTGCAGTGCCAAGGGGACAGGCAGCGACTTTACTCCCTGCAGACTGTCTTATCTGAATAGCTTTTAAAGTGAATGTGTGGGTCCGTTCGTCCTGGCCTCAGATCCATGTGGAGCCAGGGTAGTGATGAACAACAGTGAGAAAAACACAGATATTGAGGAACTTGGTTATCAAGAGCAAAATTAGACCTGAAATTCTACCTCACCGCTCAAAGAGCACTTTGATTATAAGTAGGAGGCACATTCCTGTGCAGCTTCAAATTTCTAGCTGGTGCAAGCTATGTGCGAGAGTCCTTAAAGAGATGTATGGGAGTGCAGTGATGGCAGCAAGATATACAGCTCCTGTTTTTGTCTTGGAAGTGACTGAGCTGCACATGAGTGAGTTTTGCCAGAAACCTTGCTTTCAGGCTGGGTTCTAGCATGGGAAAATTGAGAGTGAGAGGCAGAAATTCAGCGAGGTTGTAAAAGTCTGAAAAGAGAGCTATTAGGATGGAATCACTTAGGCAACCTTCGCTCAGGGCTTTGTTTTCCACACCGAGCTTGATTTACTGAGACATAGGAGTGAATGGGTTAGCTGGATTAGCTGTGTACTCAGACCTGTGCTGAGTGGTGGGGCTGGTGCTTCCAGCTCCAGAAAAGCTGGTTCGAGTCTAAAGAGTTGGTCTTTCTAGCCCCTTTCTCATATGCTGTGCAGCAAGACACGTGGCTGAATGTGTCTCAATCCTGTATTTTATAGCTTAACTAAGGAGTACCCATTACTACCCTTTCTTTGTAG
Seq C2 exon
GAGCAAAGAAGGTTTGAACAAAGCCAAAGAAATCTTAACCCGCCTGGGGGTGGAGCCGTCCCACGAGGACTGCATCGCAGTCCAGCACGTCTGCACCATCGTGTCCTTCCGCTCGGCCAACCTGGTGGCCTCCACGCTGGGTGCCATCCTCAACCAGCTGCGGGATAACAAAGGGGTTGGCCGCCTCCGCACCACCGTGGGTGTCGATGGCTCCCTCTACAAGATGCATCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004222:ENSGALT00000006719:8
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(21.7=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(32.5=100)
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:
GATGTACATGGGGGAGCTGGT
R:
TGTAGAGGGAGCCATCGACAC
Band lengths:
356-1784
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]