GgaINT1013738 @ galGal4
Intron Retention
Gene
ENSGALG00000027313 | GCK
Description
glucokinase (hexokinase 4) [Source:HGNC Symbol;Acc:HGNC:4195]
Coordinates
AADN03010888.1:4136-4840:+
Coord C1 exon
AADN03010888.1:4136-4509
Coord A exon
AADN03010888.1:4510-4809
Coord C2 exon
AADN03010888.1:4810-4840
Length
300 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGA
5' ss Score
5.24
3' ss Seq
GCCCCCATGTTGGACCACAGGAG
3' ss Score
4.67
Exon sequences
Seq C1 exon
ATGGTGCACGTGGGGCGGGGCCTTTCTGTGGGCGGGGCCTCCGCGTTGGGCGTGGCCTCCAGTGTGGGGCCGGCCCCATGGGGCAGCCTCACCCCACAGAATGGGCCCCCTATGGGGCAGCCCCCCGATGCGCCAAAACCCTCCCCTCACACAACCCCACAGCTTCACCCCGCCGTGGGGCAGGCGCCGTGCTATGGGGCCAGCGCCGTGGGGCCATCCTGGGGGGCTATGCCGGGTGGGCCCCATGTGGGGCTCCCCCCGGCGCTGTGGGGCCGACGGCCATCACGCTGTCACCTTTGTCACGGAGCTGCGGTCGCCCGTCTCCATGGGACCGCTGGAGAGCTGGCGGTGGTGACCAGGACACGGAGTGGTTG
Seq A exon
GTATGACAACTGCCGCCCGCTGATGGGCTGCGCCTCTCCGCCGGGCGCCCACGGCCTTCCCACCGCCCCACGGGGCAGCAGGCAGAGCAGGAGGAGGGCCCGCGGGCACCCCGCACCCCGAGGGCTGCCCCGGGATGTGGGGAGCCGGGCCCGAACCCTCCTGACGGGAAGGCCGTGGGGGGGGGACCGGGGGCACCCCATGAGCTAAGGGCAGAGAGCCGGGCGGGGGGCACACGGGGGGACACGGGGGGACAGCGGTGTCCGGCCCGCACCGACGGCTGCCCCCATGTTGGACCACAG
Seq C2 exon
GAGCAGGATGGAGAGCTGGCGGCAGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027313:ENSGALT00000045953:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.552 A=NA C2=0.273
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0034916=Hexokinase_1=PU(2.4=45.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCCTCCAGTGTGGGG
R:
GCCAGCTCTCCATCCTGCTC
Band lengths:
343-643
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]