HsaINT0068287 @ hg19
Intron Retention
Gene
ENSG00000106633 | GCK
Description
glucokinase (hexokinase 4) [Source:HGNC Symbol;Acc:4195]
Coordinates
chr7:44183870-44185329:-
Coord C1 exon
chr7:44185096-44185329
Coord A exon
chr7:44184880-44185095
Coord C2 exon
chr7:44183870-44184879
Length
216 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCTGCTTCTCTTCTGCCCAGCTT
3' ss Score
6.86
Exon sequences
Seq C1 exon
CGACACGGGCGACCGCAAGCAGATCTACAACATCCTGAGCACGCTGGGGCTGCGACCCTCGACCACCGACTGCGACATCGTGCGCCGCGCCTGCGAGAGCGTGTCTACGCGCGCTGCGCACATGTGCTCGGCGGGGCTGGCGGGCGTCATCAACCGCATGCGCGAGAGCCGCAGCGAGGACGTAATGCGCATCACTGTGGGCGTGGATGGCTCCGTGTACAAGCTGCACCCCAG
Seq A exon
GTGAGCCCGCCCCGCTCTCTCCCTGGTAAAGTGGGGCCCAAAAAGCGCGCGCTCCAAGGTTCCTTGCGGTTCCCAAGCTCCAAGATTTCGTAGTCCTCTTCTCGTCCCCCTTGGCCTAGATTTGGGGGAAGGGTCGACTGCGTGCAGGGCGCCCGGTAATGAATGTGGAGGATGAGGTGGGAGGAGGGACGGCAGCCCTGCTTCTCTTCTGCCCAG
Seq C2 exon
CTTCAAGGAGCGGTTCCATGCCAGCGTGCGCAGGCTGACGCCCAGCTGCGAGATCACCTTCATCGAGTCGGAGGAGGGCAGTGGCCGGGGCGCGGCCCTGGTCTCGGCGGTGGCCTGTAAGAAGGCCTGTATGCTGGGCCAGTGAGAGCAGTGGCCGCAAGCGCAGGGAGGATGCCACAGCCCCACAGCACCCAGGCTCCATGGGGAAGTGCTCCCCACACGTGCTCGCAGCCTGGCGGGGCAGGAGGCCTGGCCTTGTCAGGACCCAGGCCGCCTGCCATACCGCTGGGGAACAGAGCGGGCCTCTTCCCTCAGTTTTTCGGTGGGACAGCCCCAGGGCCCTAACGGGGGTGCGGCAGGAGCAGGAACAGAGACTCTGGAAGCCCCCCACCTTTCTCGCTGGAATCAATTTCCCAGAAGGGAGTTGCTCACTCAGGACTTTGATGCATTTCCACACTGTCAGAGCTGTTGGCCTCGCCTGGGCCCAGGCTCTGGGAAGGGGTGCCCTCTGGATCCTGCTGTGGCCTCACTTCCCTGGGAACTCATCCTGTGTGGGGAGGCAGCTCCAACAGCTTGACCAGACCTAGACCTGGGCCAAAAGGGCAGCCAGGGGCTGCTCATCACCCAGTCCTGGCCATTTTCTTGCCTGAGGCTCAAGAGGCCCAGGGAGCAATGGGAGGGGGCTCCATGGAGGAGGTGTCCCAAGCTTTGAATACCCCCAGAGACCTTTTCTCTCCCATACCATCACTGAGTGGCTTGTGATTCTGGGATGGACCCTCGCAGCAGGTGCAAGAGACAGAGCCCCCAAGCCTCTGCCCCAAGGGGCCCACAAAGGGGAGAAGGGCCAGCCCTACATCTTCAGCTCCCATAGCGCTGGCTCAGGAAGAAACCCCAAGCAGCATTCAGCACACCCCAAGGGACAACCCCATCATATGACATGCCACCCTCTCCATGCCCAACCTAAGATTGTGTGGGTTTTTTAATTAAAAATGTTAAAAGTTTTAAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000106633-GCK:NM_000162:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0372711=Hexokinase_2=FE(64.5=100)
A:
NA
C2:
PF0372711=Hexokinase_2=PD(33.1=81.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACCGCAAGCAGATCTACAA
R:
CTCCTCCGACTCGATGAAGGT
Band lengths:
301-517
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)