Variant report

Variant	rs6446619
Chromosome Location	chr4:7795686-7795687
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10015031	0.80[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs10025154	0.86[ASN][1000 genomes]
rs10029941	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs10032821	0.80[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs12645231	0.82[ASN][1000 genomes]
rs13109291	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13136890	0.84[YRI][hapmap]
rs1557817	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs16841211	0.86[ASN][1000 genomes]
rs16841229	0.86[ASN][1000 genomes]
rs2018399	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs2107182	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs28460880	0.86[ASN][1000 genomes]
rs28475763	0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs28729246	0.86[ASN][1000 genomes]
rs4234829	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4388087	0.85[CHB][hapmap]
rs4404542	0.85[CHB][hapmap]
rs4413405	0.85[CHB][hapmap]
rs55689818	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes]
rs6827395	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs6828807	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6829473	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6838291	0.82[CHB][hapmap]
rs6852990	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes]
rs756255	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9790401	0.80[AMR][1000 genomes]
rs9917925	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878570	chr4:7534603-7836835	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv491712	chr4:7582506-8155069	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv1007319	chr4:7705550-7832097	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	nsv537018	chr4:7705550-7832097	Genic enhancers Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
5	nsv1006642	chr4:7786980-7811291	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	esv34140	chr4:7787936-8172491	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:7762000-7805800	Weak transcription	Stomach Mucosa	stomach
2	chr4:7770800-7828400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr4:7776400-7799000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr4:7776400-7800000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr4:7776400-7806800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr4:7780600-7800200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr4:7781000-7800000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr4:7781200-7796000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr4:7781400-7800400	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr4:7781400-7801000	Weak transcription	Brain Substantia Nigra	brain
11	chr4:7781400-7801200	Weak transcription	Brain Anterior Caudate	brain
12	chr4:7781600-7807400	Weak transcription	Brain Angular Gyrus	brain
13	chr4:7783400-7798800	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr4:7783400-7799200	Weak transcription	HepG2	liver
15	chr4:7783800-7806200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr4:7784000-7801800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr4:7784000-7821200	Weak transcription	Small Intestine	intestine
18	chr4:7784200-7797800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr4:7784200-7800600	Weak transcription	Brain Hippocampus Middle	brain
20	chr4:7784200-7800600	Weak transcription	Esophagus	oesophagus
21	chr4:7784200-7802200	Weak transcription	Aorta	Aorta
22	chr4:7784200-7802800	Strong transcription	Fetal Muscle Trunk	muscle
23	chr4:7784800-7803400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr4:7785200-7796200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr4:7785800-7795800	Strong transcription	Duodenum Mucosa	Duodenum
26	chr4:7785800-7803800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr4:7786000-7800800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr4:7787000-7829400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr4:7787200-7799000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr4:7787400-7800200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr4:7789200-7806600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
32	chr4:7789400-7799000	Weak transcription	Primary T cells fromperipheralblood	blood
33	chr4:7790800-7800800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
34	chr4:7790800-7803600	Strong transcription	HSMM	muscle
35	chr4:7791000-7801400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr4:7791000-7806600	Weak transcription	Psoas Muscle	Psoas
37	chr4:7791000-7829400	Weak transcription	Primary monocytes fromperipheralblood	blood
38	chr4:7791200-7796400	Strong transcription	Muscle Satellite Cultured Cells	--
39	chr4:7791200-7800800	Weak transcription	Spleen	Spleen
40	chr4:7791400-7800400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr4:7791400-7806600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr4:7791600-7797600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr4:7791600-7799000	Weak transcription	Gastric	stomach
44	chr4:7791600-7799000	Weak transcription	Pancreas	Pancrea
45	chr4:7791600-7800000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr4:7791600-7800400	Weak transcription	Left Ventricle	heart
47	chr4:7791600-7800400	Weak transcription	Right Ventricle	heart
48	chr4:7791600-7801200	Weak transcription	Fetal Brain Male	brain
49	chr4:7792200-7795800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
50	chr4:7792200-7803200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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