GgaINT1013746 @ galGal4
Intron Retention
Gene
ENSGALG00000027313 | GCK
Description
glucokinase (hexokinase 4) [Source:HGNC Symbol;Acc:HGNC:4195]
Coordinates
AADN03010888.1:7711-9795:+
Coord C1 exon
AADN03010888.1:7711-7866
Coord A exon
AADN03010888.1:7867-9018
Coord C2 exon
AADN03010888.1:9019-9795
Length
1152 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
ACGGCTCTGTCCCACTGCAGCGA
3' ss Score
8.61
Exon sequences
Seq C1 exon
CTACGAGAAGATCATCGGGGGCAAATACATGGGGGAGATCGTGCGGCTGGTGCTGCTGCGGCTGGTGGATGAGAACCTGCTGTTCAGCGGGCAGGCCTGCGAGAAGCTCAAGACACGCGGGGCCTTCGAGACGCGCTTCGTGTCACAGGTGGAGAG
Seq A exon
GTATGGGGCGGCCGCGGGGGTCCCTCACGGTGCCTCGTCTCAGCGGGTACTCCCCGCCCCCTCTGTCCCCGACTGCCCCACGTGGGGTCCTCTGTCGCATCACCCCATGGCAACGATCTGCAGCCACCCCATGTTGGGTTCCCCAAGCCGTTTCTCAGCACCGGGGTCCCTTGTCCTGTCTCCCCACACCACTCCGTCCCACACCGAGGTCCCCTGCCCCGTCACCCCACGGCAGCCTTCCGGAATGGCCCCACATGTGGCTCCCCTGTCCCACTGCCCCACACTGGGGTCCCCCATCCCATTACCCCACAACAACCCTCTACAGCTGCCCCGTATTGGGGTTCCCTACCTCATTTCCTCGTGCTAGACGTTGAGCTCCCCTGCCCCATTCCTCAATCCTACATCCCACACTGGGGCCGTGTCCCCTCACCCCACACCAGCCCTCTACGACTGCCCTACCCCGGAGTCCCTCATCCCATTGATGAGTCCATCATCCATTGATGATCCCGCTTTGTTGTCTTATCCTATTGCTTTGGGGTCCCCTGCCCCATCTCTCTGCACCAGACTGTCCCACATGGGGGTCCCCTGTGCCATCACCCTACAGCAGCTGTCTCTGATCGTCCCTTATTGAGGCCCCTGTGCCATCATCCCATGGTAACCTTCTACAGCTGCCCAGTATTGGGGTTCCCTACCTCGTTGCTTCATGTTGGGCACCAGGATCCCCAGCCCCGTCTCCCCACACCAGCGTCCTACATCAGGGTCTCCTTTGCCATTACCCCAGCTCACTCTAATAGCTGTCCCAAATTGGGACCCTCCCCATCTCGTCACCCCACATCAGCCCTCTGTAGCTGCCTACGTTGGAGTCCCCTATCCTACTGGCCTGGGTTGGAGTCCCCTATCCCACTACCCCACTTTGGGACCCTCTTTCCTCTTAGCCCATGCCAGCCCTCCAGAACTGTCCCCATGGAGGTTCCCTGTGCCATCACCCCCATGACAACGCTCTACGACTGCCCCACGTTGGGGTTCCCTGCCCCATCACCCCACACCAGCCCTCTGTAGCTGTCCCGGGTTGGATTCCCATCACCCCGCTTTGGTGCCCCACGCCGCCCCACGGTCACCCCCCCTCCTACACACGGCTCTGTCCCACTGCAG
Seq C2 exon
CGACTCAGGAGACCGCAAGCAGATCTACAACATCCTCACAGCCTTCGGGCTGCTGCCCTCGGGGTCGGACTGCGACATCGTGCGCATGGTGTGCGAGAGCGTGTCCACACGCGCTGCCCAGATGTGCTCAGCCGGGCTGGCCGGCGTCATCAACCGCATGCGGGAGAGCCGCAGCCAGGAGACCCTCAAGATCACCGTGGGGGTGGACGGCTCTGTCTACAAGCTGCACCCCAGGTGAGACCGTGGGGAGGCGTCACCCCCTCCCAACCTGCGTCCTCCTATTTCCCACCGCCCCAATGCTCCGCTTCCTCCTCCTCACCATACCCCTAACGTTGACCTAACTCTATCCATAACCCTAAATGGAGACATAACACTAACGCTAGCCATAGCTGTAGTCCTAACTGCAACTATGACCCTAGCCCTAACCGTAACCAAAACCATAATCCTAACCCTAGCCATCATCGTAACGATAACCATAACCCTAATCATAACCATAACCCTAACCATAACCATAGCCCTAACCCCAACCATCACCCTAACACTAACCCTAGCCCTATCAGTAACCCTAACCCTAATCCCAACCATCACCCTAACACTAACCCTAACCCTGTCAGTAACCCTAACCCTAACCATAACCCTAATCCCAACCATCACCCTAACACTAACCCTAGCCCTATCAGTAACCCTAACCCTAATCCTATCAGTAATCCTAACCCTAACCCCAACCATCACCCTAACACTAACCCTAATCCTATCAGTAACCCTAACCCTAATCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000027313:ENSGALT00000045953:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=FE(26.0=100)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(39.0=97.5)
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:
TACGAGAAGATCATCGGGGGC
R:
GATCTTGAGGGTCTCCTGGCT
Band lengths:
348-1500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]