Variant report

Variant	rs4740935
Chromosome Location	chr9:8340155-8340156
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10511491	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10732364	0.95[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10733545	0.94[JPT][hapmap]
rs10733546	0.81[ASN][1000 genomes]
rs10739155	0.84[AMR][1000 genomes]
rs10739156	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10739157	0.87[CHB][hapmap]
rs10739158	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10739159	0.88[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10739160	0.95[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10758956	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10758957	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.87[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10758958	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10758959	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10758963	0.91[CHB][hapmap]
rs10815823	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10815826	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10815827	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10815828	0.88[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10815829	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10815830	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10815832	0.87[CHB][hapmap]
rs10976946	0.80[JPT][hapmap]
rs10976970	0.91[ASN][1000 genomes]
rs10976987	0.85[CHB][hapmap]
rs10976989	0.88[CEU][hapmap];0.86[CHB][hapmap]
rs10977006	0.95[CHB][hapmap]
rs11794527	1.00[CEU][hapmap];0.96[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12238805	0.85[ASN][1000 genomes]
rs12682837	0.81[ASN][1000 genomes]
rs1392518	0.83[CHB][hapmap]
rs1500320	0.85[CEU][hapmap]
rs1500321	0.83[CEU][hapmap];1.00[CHB][hapmap]
rs1500323	0.86[CHB][hapmap]
rs1587485	0.81[ASN][1000 genomes]
rs16927668	0.83[CHB][hapmap]
rs20513	0.88[CEU][hapmap];0.82[CHB][hapmap]
rs28891834	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3736381	0.86[CHB][hapmap]
rs3765142	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3765143	0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3780337	0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs3847290	0.88[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3902903	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4740936	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4740937	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4740939	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4740940	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4740941	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742483	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4742485	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4742490	0.91[CHB][hapmap]
rs7018576	0.88[CEU][hapmap];0.82[CHB][hapmap]
rs7022162	0.82[CHB][hapmap]
rs7032880	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.89[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7044926	0.89[YRI][hapmap]
rs7848626	0.83[JPT][hapmap]
rs7850069	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7851892	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7853112	0.95[CHB][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs7856860	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7856922	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7857177	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7864500	0.87[CHB][hapmap]
rs7873177	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[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	nsv8414	chr9:7827373-8511613	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1031472	chr9:8250901-8712547	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	esv2830193	chr9:8337939-8345923	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv523768	chr9:8339606-8342540	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:8323400-8341600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr9:8323800-8341600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr9:8324000-8345000	Weak transcription	Fetal Brain Male	brain
4	chr9:8330000-8348600	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr9:8330200-8340200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr9:8330200-8340400	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr9:8330200-8340800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:8330200-8342200	Weak transcription	Fetal Muscle Trunk	muscle
9	chr9:8330200-8364200	Weak transcription	Brain Anterior Caudate	brain
10	chr9:8331400-8342000	Weak transcription	Fetal Kidney	kidney
11	chr9:8336800-8341800	Weak transcription	HUES64 Cell Line	embryonic stem cell
12	chr9:8337200-8340400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:8337400-8340200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr9:8337400-8340200	Strong transcription	Brain Cingulate Gyrus	brain
15	chr9:8337400-8340600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr9:8337400-8340800	Strong transcription	Fetal Brain Female	brain
17	chr9:8337400-8341800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr9:8337600-8340400	Strong transcription	Primary hematopoietic stem cells	blood
19	chr9:8338600-8342000	Weak transcription	Dnd41	blood
20	chr9:8338800-8348600	Weak transcription	Brain Angular Gyrus	brain
21	chr9:8339000-8340600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr9:8339200-8348000	Weak transcription	Brain Substantia Nigra	brain
23	chr9:8339400-8345600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr9:8339600-8341200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr9:8339600-8342600	Weak transcription	Fetal Lung	lung
26	chr9:8339600-8364400	Weak transcription	Brain Germinal Matrix	brain
27	chr9:8339600-8397600	Weak transcription	Fetal Muscle Leg	muscle
28	chr9:8339800-8347400	Weak transcription	Brain Hippocampus Middle	brain
29	chr9:8340000-8340200	Enhancers	Ovary	ovary
30	chr9:8340000-8346000	Weak transcription	Cortex derived primary cultured neurospheres	brain

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