GgaINT0004615 @ galGal3
Intron Retention
Gene
ENSGALG00000009754 | HK2
Description
NA
Coordinates
chrUn_random:10838399-10839118:+
Coord C1 exon
chrUn_random:10838399-10838703
Coord A exon
chrUn_random:10838704-10838969
Coord C2 exon
chrUn_random:10838970-10839118
Length
266 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AACCCTCTCCTGGCTTTTAGAAA
3' ss Score
8.26
Exon sequences
Seq C1 exon
CTTTGCCCGACGCCTCCATAAGACAGTGAGGAAGCTGCTGCCCGACTGCGAGATCCGATTCGTGAGGTCGGAAGATGGCAGTGGCAAAGGGGCGGCCATGGTGACGGCGGTGGCCTACCGGCTGGCGGCCCAGCACAAGGCCCGGCAGAAGATCCTGGAGGCGCTGAAGCTGAGTCACGAGCAGCTCCTGGAGGTGAAGCGGAGGATGAGGGTTGAAATGGAGAAGGGGTTGGGCAAGGAGACGCACGCGGAGGCCACGGTGAAGATGCTGCCCACATACGTGTGCTCAACTCCAGATGGGACAG
Seq A exon
GTGAGGATACCTTCATGTCCCGCATACAGCAAAGAGCTCCCAGTGTCCATGCCATGTAGGGACAGCTGTTCCCCTCAACGTCGAGTGCTGCTGTGGTTCCAAAGCTCTGGGATGACAATGCTGAGCCCTTGGGATATCCCGTGCCCAAAACAGCACCCTTGGCTGGGAAATGTCACCTCCCTGTTCCCAGCCGTGGTTTCTCTGCCCCATGCTCATGGTATTCCTCATTGGGCTCTCTCTCCTCACAACCCTCTCCTGGCTTTTAG
Seq C2 exon
AAAAAGGAGATTTCCTCGCTCTGGACCTGGGGGGGACGAACTTCCGTGTGCTGCTGGTGCGGGTGCGGAACGGGATGCGGCGCGGCGTGGAGATGCACAACAAGATCTACTCCATCCCCCTGGAGGTGATGCAGGGGACAGGCGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009754:ENSGALT00000036098:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=PD(16.7=38.8),PF0034916=Hexokinase_1=PU(29.1=58.3)
A:
NA
C2:
PF0034916=Hexokinase_1=FE(23.8=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:
GACTGCGAGATCCGATTCGTG
R:
CCAGGTCCAGAGCGAGGAAAT
Band lengths:
292-558
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]