GgaINT0004622 @ galGal3
Intron Retention
Gene
ENSGALG00000009754 | HK2
Description
NA
Coordinates
chrUn_random:10841235-10841776:+
Coord C1 exon
chrUn_random:10841235-10841327
Coord A exon
chrUn_random:10841328-10841542
Coord C2 exon
chrUn_random:10841543-10841776
Length
215 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GTGCCCTCTCTGCCCCACAGCGA
3' ss Score
9.64
Exon sequences
Seq C1 exon
CACCAAGCGAGGGCTGGTCTTCCGCGGCCGCATCTCCGAGCGCCGGAAGACCAGAGGGATCTTCGAGACAAAGTTCCTGTCCCAGATAGAAAG
Seq A exon
GTGAGGACGTGAGCGTGGCCGTCCTGCTGTGTTTTTTGGGGGGGGTCCCCGGGTCCTCCGCTCAGAGCCAGGGCGATACGGTGTGAGGAATGGAGTGCACTCCACCCTGGGTATCCCTCCAGTTGGCGTTACCCAAACCACGACTCCATGGGTGCCATAGGACACGTGGATGTGGGGGTAAACCTCCTAACTGCTGTGCCCTCTCTGCCCCACAG
Seq C2 exon
CGACTGCCTGGCCCTGCTGCAGGTGCGCTCCATCCTCCAGCACCTGGGCTTGGAGAGCACGTGTGATGACAGCATCATCGTCAAGGAGGTGTGCACCGTGGTGGCCCGGCGTGCCGCGCAGCTCTGCGGGGCCGGAATGGCCGCCGTGGTGGATAAGATCCGCGAGAACCGTGGGCTGGACTTCCTCAAGGTGACGGTCGGTGTGGATGGGACGCTCTACAAACTGCACCCACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009754:ENSGALT00000036098:19
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(12.9=100)
A:
NA
C2:
PF0372711=Hexokinase_2=FE(32.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGGCTGGTCTTCCGCG
R:
TTGTAGAGCGTCCCATCCACA
Band lengths:
307-522
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]