GgaINT0004613 @ galGal3
Intron Retention
Gene
ENSGALG00000009754 | HK2
Description
NA
Coordinates
chrUn_random:10837462-10837961:+
Coord C1 exon
chrUn_random:10837462-10837617
Coord A exon
chrUn_random:10837618-10837727
Coord C2 exon
chrUn_random:10837728-10837961
Length
110 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGC
5' ss Score
5.01
3' ss Seq
TTCTGTTCTTCGGTGCACAGGGA
3' ss Score
7.39
Exon sequences
Seq C1 exon
GTTCGAGAAGATGATCAGCGGGATGTACATGGGCGAGCTGGTGCGCCTCATCCTGGTGAAGATGGCCAAGGAGGGGCTCCTCTTCCAAGGGAAGCTCTCTTCGGATCTGCGCACCACCGGACACTTCGAGACCAGATTTGTCTCCGCTATTGAGAA
Seq A exon
GTGAGCAGGGGCTGGGTGTGGGGTCCCAACCCACCACCCTCTAACTGGGGGAAACGCTGGGCCCACCGCGGATTTCCAGACGCAGATCTCTTCTGTTCTTCGGTGCACAG
Seq C2 exon
GGAGAAAGAGGGGCTGCAGAAAGCCCACGAGATCCTCACCAAGCTGGGCCTGGAGCCATCCCACGAGGACTGCCTGGCCACCCACCGCATCTGCCAGATCGTCTCCACCCGCTCGGCCAACCTCTGTGGGGCCACGCTGGCCGCCGTGCTGCGCCGCATCAAGGAGAACAAGGGGGTGGACCGGCTGCGCTCCACCGTCGGCGTGGATGGCTCCGTCTACAAGAAGCACCCGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009754:ENSGALT00000036098:10
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
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGCTCTCTTCGGATCTGCG
R:
CCCCCTTGTTCTCCTTGATGC
Band lengths:
242-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]