Variant report

Variant	rs9347385
Chromosome Location	chr6:160529421-160529422
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC22A1-2	chr6:160529406-160532536	ENSG00000270949.1

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs1050015	0.82[AFR][1000 genomes]
rs1479355	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1867350	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1867351	1.00[CEU][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1871388	0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2297366	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2297370	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2297371	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2297372	0.85[CEU][hapmap]
rs3798168	0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3798169	0.85[ASN][1000 genomes]
rs3798173	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs3822841	1.00[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap]
rs4551194	0.83[ASN][1000 genomes]
rs4646273	0.87[ASN][1000 genomes]
rs4646274	0.87[ASN][1000 genomes]
rs4709399	0.84[CEU][hapmap]
rs4709400	1.00[CEU][hapmap];0.81[AMR][1000 genomes]
rs56384560	0.82[AFR][1000 genomes]
rs58458113	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6935207	1.00[CEU][hapmap];0.81[AMR][1000 genomes]
rs73025542	0.80[AFR][1000 genomes]
rs755883	0.85[ASN][1000 genomes]
rs755884	0.85[CEU][hapmap]
rs7753051	0.94[EUR][1000 genomes]
rs7760552	0.80[CEU][hapmap]
rs7769472	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs9346808	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9355776	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9365131	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9365132	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9365133	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv35098	chr6:160422589-161070870	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv2757197	chr6:160432331-161070870	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv818463	chr6:160435569-161025547	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:160453000-160534600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:160455800-160532000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr6:160464600-160531800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
4	chr6:160465600-160530800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:160477200-160531200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:160477200-160531400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr6:160487600-160530800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr6:160490200-160531400	Strong transcription	Dnd41	blood
9	chr6:160491200-160531400	Strong transcription	Fetal Thymus	thymus
10	chr6:160510200-160531000	Strong transcription	Muscle Satellite Cultured Cells	--
11	chr6:160511000-160531600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr6:160511000-160531600	Strong transcription	Fetal Muscle Leg	muscle
13	chr6:160511400-160532600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr6:160512000-160532800	Weak transcription	A549	lung
15	chr6:160512000-160539200	Weak transcription	Stomach Mucosa	stomach
16	chr6:160518000-160532200	Weak transcription	Fetal Brain Male	brain
17	chr6:160521600-160529600	Strong transcription	Rectal Smooth Muscle	rectum
18	chr6:160521800-160537600	Strong transcription	Fetal Intestine Small	intestine
19	chr6:160522000-160530600	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:160522000-160531000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:160522000-160531400	Strong transcription	Fetal Muscle Trunk	muscle
22	chr6:160522000-160531600	Strong transcription	Thymus	Thymus
23	chr6:160522200-160529600	Strong transcription	Adipose Nuclei	Adipose
24	chr6:160522200-160529600	Strong transcription	Spleen	Spleen
25	chr6:160522200-160529800	Strong transcription	Primary T cells from cord blood	blood
26	chr6:160522200-160531400	Strong transcription	Fetal Stomach	stomach
27	chr6:160522400-160529600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:160522400-160531400	Strong transcription	Sigmoid Colon	Sigmoid Colon
29	chr6:160522400-160532000	Strong transcription	Primary neutrophils fromperipheralblood	blood
30	chr6:160522600-160531400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr6:160522800-160529600	Strong transcription	Duodenum Mucosa	Duodenum
32	chr6:160522800-160529800	Strong transcription	Lung	lung
33	chr6:160522800-160530200	Weak transcription	Right Atrium	heart
34	chr6:160522800-160531400	Strong transcription	NHLF	lung
35	chr6:160522800-160532200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr6:160523200-160540200	Weak transcription	Fetal Heart	heart
37	chr6:160523600-160530000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:160525000-160531200	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr6:160525400-160529800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr6:160525800-160531200	Weak transcription	Fetal Kidney	kidney
41	chr6:160526200-160539000	Weak transcription	Colon Smooth Muscle	Colon
42	chr6:160526200-160548600	Weak transcription	K562	blood
43	chr6:160526400-160533400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr6:160526400-160536800	Weak transcription	Primary B cells from peripheral blood	blood
45	chr6:160526800-160530200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr6:160526800-160530200	Weak transcription	NHEK	skin
47	chr6:160526800-160531800	Weak transcription	Hela-S3	cervix
48	chr6:160526800-160532000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr6:160526800-160532600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr6:160526800-160532800	Weak transcription	HUES6 Cell Line	embryonic stem cell

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