Variant report

Variant	rs4289709
Chromosome Location	chr7:26582712-26582713
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SPI1	chr7:26582601-26583039	HL-60	blood:	n/a	n/a
2	GATA2	chr7:26582664-26583729	SH-SY5Y	brain:	n/a	chr7:26582776-26582789

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:26576661..26579431-chr7:26581573..26583872,2	MCF-7	breast:

Variant related genes	Relation type
KIAA0087	TF binding region
ENSG00000122548	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1047022	1.00[CHB][hapmap]
rs1076284	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12537002	1.00[ASN][1000 genomes]
rs12700741	0.92[ASN][1000 genomes]
rs12700742	1.00[CHB][hapmap];0.85[JPT][hapmap];0.92[ASN][1000 genomes]
rs17153945	0.85[ASN][1000 genomes]
rs17283843	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17284017	0.85[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2391284	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3757656	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs4719871	1.00[ASN][1000 genomes]
rs4719872	0.92[ASN][1000 genomes]
rs4722607	0.92[ASN][1000 genomes]
rs4722609	0.82[ASN][1000 genomes]
rs6957136	1.00[ASN][1000 genomes]
rs6957786	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs6968080	1.00[ASN][1000 genomes]
rs6968655	0.91[ASN][1000 genomes]
rs71521775	0.82[ASN][1000 genomes]
rs71521777	0.82[ASN][1000 genomes]
rs73063761	1.00[ASN][1000 genomes]
rs73063763	0.94[ASN][1000 genomes]
rs73063794	1.00[ASN][1000 genomes]
rs740185	0.82[ASN][1000 genomes]
rs740186	0.82[ASN][1000 genomes]
rs740187	0.82[ASN][1000 genomes]
rs757804	1.00[JPT][hapmap];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029596	chr7:26302739-26737913	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
2	nsv538804	chr7:26302739-26737913	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv1025538	chr7:26482342-27376045	Enhancers Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
4	nsv538805	chr7:26482342-27376045	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:26578800-26591600	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr7:26579400-26589000	Weak transcription	Fetal Thymus	thymus
3	chr7:26579600-26582800	Weak transcription	Primary hematopoietic stem cells	blood
4	chr7:26581800-26585200	Enhancers	Fetal Stomach	stomach
5	chr7:26582000-26582800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr7:26582400-26586800	Enhancers	Fetal Muscle Leg	muscle
7	chr7:26582400-26592200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr7:26582600-26582800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr7:26582600-26585000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links