Variant report

Variant	rs1776899
Chromosome Location	chr6:34193230-34193231
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:15)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:15 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:34191402..34195529-chr6:34392087..34394261,4	MCF-7	breast:
2	chr6:34162948..34164566-chr6:34191693..34193324,2	MCF-7	breast:
3	chr6:34163985..34165499-chr6:34190823..34193399,2	MCF-7	breast:
4	chr6:34191835..34193562-chr6:34195845..34198625,2	MCF-7	breast:
5	chr6:34191327..34194039-chr6:34200124..34202308,2	MCF-7	breast:
6	chr6:34191465..34193341-chr6:34208084..34210074,2	MCF-7	breast:
7	chr6:34190794..34193339-chr6:34210453..34212412,2	MCF-7	breast:
8	chr6:34190283..34196950-chr6:34202449..34206308,21	MCF-7	breast:
9	chr6:34190610..34193435-chr6:34214728..34218107,4	MCF-7	breast:
10	chr6:34190218..34193662-chr6:34359296..34361712,5	MCF-7	breast:
11	chr6:34167257..34169586-chr6:34191240..34193285,2	K562	blood:
12	chr6:34105117..34107025-chr6:34191466..34193901,2	K562	blood:
13	chr6:34190995..34193306-chr6:34193856..34195513,2	MCF-7	breast:
14	chr6:34161256..34167016-chr6:34189422..34193988,6	K562	blood:
15	chr6:34191468..34193881-chr6:34392359..34395019,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000124614	Chromatin interaction
ENSG00000137309	Chromatin interaction
ENSG00000270800	Chromatin interaction
ENSG00000186577	Chromatin interaction
ENSG00000272325	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10807136	0.89[ASN][1000 genomes]
rs10807139	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10947487	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1187115	0.81[ASN][1000 genomes]
rs1187118	0.81[ASN][1000 genomes]
rs12214804	0.84[ASN][1000 genomes]
rs1592269	0.97[ASN][1000 genomes]
rs1759627	0.81[ASN][1000 genomes]
rs1759628	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1759645	0.81[ASN][1000 genomes]
rs1759646	0.82[ASN][1000 genomes]
rs1776891	0.82[AMR][1000 genomes]
rs1776897	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs1776898	0.84[ASN][1000 genomes]
rs1776901	0.97[ASN][1000 genomes]
rs2780226	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2797963	0.84[ASN][1000 genomes]
rs2797964	0.82[ASN][1000 genomes]
rs28539536	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs4711389	0.83[AMR][1000 genomes]
rs4713761	0.82[AMR][1000 genomes]
rs56657958	0.84[AMR][1000 genomes]
rs6909732	0.83[AMR][1000 genomes]
rs6911780	0.87[ASN][1000 genomes]
rs6913361	0.85[ASN][1000 genomes]
rs6932690	0.83[AMR][1000 genomes]
rs7740907	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7749848	0.81[ASN][1000 genomes]
rs7751671	0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7753987	0.83[AMR][1000 genomes]
rs7774122	0.81[ASN][1000 genomes]
rs928482	0.84[AMR][1000 genomes]
rs9394200	0.83[AMR][1000 genomes]
rs9394202	0.81[AMR][1000 genomes]
rs9461968	0.80[AMR][1000 genomes]
rs9461969	0.80[AMR][1000 genomes]
rs9469738	0.89[ASN][1000 genomes]
rs9469750	0.80[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv462900	chr6:33932442-34195011	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
2	nsv602843	chr6:33932442-34195011	Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv432881	chr6:34026522-34213822	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv462902	chr6:34056726-34195011	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv602862	chr6:34056726-34195011	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
6	nsv885781	chr6:34110257-34247661	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
7	nsv462903	chr6:34110257-34263743	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
8	nsv602863	chr6:34110257-34263743	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
9	esv1816380	chr6:34110880-34206718	Transcr. at gene 5' and 3' Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	48 gene(s)	inside rSNPs	diseases
10	nsv885782	chr6:34187206-34209516	Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
11	nsv885783	chr6:34187206-34209844	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
12	nsv885784	chr6:34187206-34246714	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34192400-34193400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr6:34192400-34193400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:34192400-34193400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:34192400-34193400	Weak transcription	Esophagus	oesophagus
5	chr6:34192400-34193400	Weak transcription	Thymus	Thymus
6	chr6:34192400-34193400	Weak transcription	Spleen	Spleen
7	chr6:34192400-34193600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr6:34192400-34193600	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:34192400-34193600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr6:34192400-34194200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr6:34192400-34194200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:34192400-34195000	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr6:34192400-34195200	Weak transcription	Fetal Brain Male	brain
14	chr6:34192400-34199800	Weak transcription	Gastric	stomach
15	chr6:34192400-34200600	Weak transcription	HSMM	muscle
16	chr6:34192400-34202600	Weak transcription	Right Atrium	heart
17	chr6:34192400-34203400	Weak transcription	Pancreas	Pancrea
18	chr6:34192400-34203600	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr6:34192600-34193400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:34192600-34193400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
21	chr6:34192600-34193400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr6:34192600-34193400	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr6:34192600-34193400	Enhancers	Primary hematopoietic stem cells	blood
24	chr6:34192600-34193400	Weak transcription	Fetal Thymus	thymus
25	chr6:34192600-34193800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr6:34192600-34193800	Enhancers	Liver	Liver
27	chr6:34192600-34194200	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr6:34192600-34194200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr6:34192600-34194200	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr6:34192600-34194400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:34192600-34194400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr6:34192600-34194400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr6:34192600-34194600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr6:34192600-34194600	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr6:34192600-34194600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr6:34192600-34194600	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr6:34192600-34194600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr6:34192600-34194600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:34192600-34195000	Weak transcription	Primary T cells fromperipheralblood	blood
40	chr6:34192600-34195000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr6:34192600-34195000	Weak transcription	HMEC	breast
42	chr6:34192600-34195600	Weak transcription	Placenta	Placenta
43	chr6:34192600-34195800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr6:34192600-34196200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr6:34192600-34196600	Weak transcription	Brain Anterior Caudate	brain
46	chr6:34192600-34196800	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr6:34192600-34197000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr6:34192600-34197000	Weak transcription	Osteobl	bone
49	chr6:34192600-34203600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr6:34192600-34204400	Weak transcription	HSMMtube	muscle

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