Variant report

Variant	rs12197221
Chromosome Location	chr6:30796384-30796385
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:40)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:40 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:30795970..30796922-chr6:31036758..31037281,2	K562	blood:
2	chr6:30795677..30797852-chr6:30845172..30846174,17	K562	blood:
3	chr6:30794974..30797453-chr6:30880816..30883631,3	MCF-7	breast:
4	chr6:30795961..30796892-chr6:31051647..31052371,2	K562	blood:
5	chr6:30787789..30791714-chr6:30792255..30797305,10	K562	blood:
6	chr6:30766881..30768729-chr6:30796268..30797854,2	MCF-7	breast:
7	chr6:30735516..30738178-chr6:30794315..30796554,3	MCF-7	breast:
8	chr6:30796298..30796948-chr6:31010213..31011129,3	MCF-7	breast:
9	chr6:30794499..30796682-chr6:30796946..30799909,4	K562	blood:
10	chr6:30796384..30798794-chr6:30876100..30879027,2	MCF-7	breast:
11	chr6:30796239..30796891-chr6:30844046..30844747,2	K562	blood:
12	chr6:30792900..30798152-chr6:30848587..30855236,10	MCF-7	breast:
13	chr6:30796064..30796722-chr6:30881441..30882257,2	MCF-7	breast:
14	chr6:30796027..30796900-chr6:30881469..30882333,4	MCF-7	breast:
15	chr6:30794216..30799803-chr6:30838849..30846731,16	K562	blood:
16	chr6:30793814..30798702-chr6:30880453..30884092,5	K562	blood:
17	chr6:30787837..30792214-chr6:30792255..30797817,7	K562	blood:
18	chr6:30795223..30797850-chr6:30849493..30851248,2	K562	blood:
19	chr6:30796035..30796933-chr6:31047284..31048260,5	K562	blood:
20	chr6:30795972..30796653-chr6:31011334..31012075,2	K562	blood:
21	chr6:30794896..30797869-chr6:30842153..30843762,2	K562	blood:
22	chr6:30795980..30796892-chr6:30881457..30882601,3	K562	blood:
23	chr6:30795938..30797474-chr6:30860492..30861360,6	K562	blood:
24	chr6:30709015..30713327-chr6:30792572..30798179,6	K562	blood:
25	chr6:30703666..30722133-chr6:30776009..30801352,184	MCF-7	breast:
26	chr6:30796286..30797094-chr6:31038583..31039101,2	MCF-7	breast:
27	chr3:63497233..63499254-chr6:30795355..30797782,2	MCF-7	breast:
28	chr6:30738970..30741977-chr6:30793706..30796488,3	MCF-7	breast:
29	chr6:30792780..30797161-chr6:30880651..30883443,6	K562	blood:
30	chr6:30795972..30797365-chr6:30845047..30846130,14	MCF-7	breast:
31	chr6:30780598..30803497-chr6:30842531..30855110,80	MCF-7	breast:
32	chr6:30794216..30796445-chr6:30839045..30841799,3	K562	blood:
33	chr6:30795918..30796957-chr6:30845184..30846122,7	MCF-7	breast:
34	chr6:30796335..30796872-chr6:31055400..31055943,2	K562	blood:
35	chr6:30792427..30796566-chr6:30845190..30846951,4	MCF-7	breast:
36	chr6:30703055..30723531-chr6:30783853..30800217,151	MCF-7	breast:
37	chr6:30686162..30687750-chr6:30794446..30796448,2	MCF-7	breast:
38	chr6:30796002..30796914-chr6:30849773..30850471,2	K562	blood:
39	chr6:30794295..30796763-chr6:31046294..31048518,2	K562	blood:
40	chr6:30733982..30738634-chr6:30792613..30796884,6	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000137411	Chromatin interaction
ENSG00000201988	Chromatin interaction
ENSG00000137331	Chromatin interaction
ENSG00000213780	Chromatin interaction
ENSG00000272273	Chromatin interaction
ENSG00000137312	Chromatin interaction
ENSG00000237775	Chromatin interaction
ENSG00000204580	Chromatin interaction
ENSG00000228022	Chromatin interaction
ENSG00000263608	Chromatin interaction
ENSG00000214894	Chromatin interaction

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:96)

rs_ID	r²[population]
rs10807071	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12189560	0.84[EUR][1000 genomes]
rs12189986	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12190167	0.89[EUR][1000 genomes]
rs12190453	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12192177	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs12192178	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs12192205	0.85[EUR][1000 genomes]
rs12192430	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192704	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12192760	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192828	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195469	0.85[EUR][1000 genomes]
rs12195508	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12195605	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12195964	0.85[EUR][1000 genomes]
rs12197154	0.83[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12198723	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198842	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12199559	0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12199612	0.81[EUR][1000 genomes]
rs12200562	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12200829	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12202570	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12202778	0.82[EUR][1000 genomes]
rs12202957	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12203011	0.84[EUR][1000 genomes]
rs12203199	0.84[EUR][1000 genomes]
rs12203797	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12204146	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12204167	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12205844	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12205961	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206022	0.85[EUR][1000 genomes]
rs12206742	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12206930	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12207652	0.82[EUR][1000 genomes]
rs12208098	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12208771	0.84[EUR][1000 genomes]
rs12209725	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12210111	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12210318	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12210590	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12212837	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12213493	0.85[EUR][1000 genomes]
rs12213497	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12214232	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12214398	0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12215119	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1264372	0.82[ASN][1000 genomes]
rs16897921	0.85[EUR][1000 genomes]
rs16897932	0.85[EUR][1000 genomes]
rs17189483	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17189490	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17195830	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17195837	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2394414	0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28744161	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28744171	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28766294	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs28877339	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28890780	0.82[EUR][1000 genomes]
rs4248152	0.85[EUR][1000 genomes]
rs4327730	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4409219	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4711240	0.84[EUR][1000 genomes]
rs4711241	0.85[EUR][1000 genomes]
rs4713373	0.84[EUR][1000 genomes]
rs4713376	0.84[EUR][1000 genomes]
rs4713386	0.85[EUR][1000 genomes]
rs4713387	0.84[EUR][1000 genomes]
rs4713388	0.83[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs4713391	0.85[EUR][1000 genomes]
rs59293911	0.84[EUR][1000 genomes]
rs62400964	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400965	0.80[EUR][1000 genomes]
rs62400966	0.80[EUR][1000 genomes]
rs62400977	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400978	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400979	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62400980	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400981	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62408707	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62408708	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62408709	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62408712	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62408713	0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs62408715	0.84[EUR][1000 genomes]
rs62408716	0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62408723	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62408724	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62408725	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62408726	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62408727	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62408728	0.85[EUR][1000 genomes]
rs9501488	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3519970	chr6:30382942-31378788	Genic enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
2	esv3519971	chr6:30382942-31378788	Bivalent Enhancer Flanking Active TSS Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1030 gene(s)	inside rSNPs	diseases
3	nsv601481	chr6:30422632-31284253	Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1012 gene(s)	inside rSNPs	diseases
4	esv3430377	chr6:30443802-30814426	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	967 gene(s)	inside rSNPs	diseases
5	esv2758041	chr6:30644693-30816319	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	223 gene(s)	inside rSNPs	diseases
6	esv2759413	chr6:30644693-30816319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	223 gene(s)	inside rSNPs	diseases
7	nsv1015372	chr6:30704734-31582152	Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
8	nsv538173	chr6:30704734-31582152	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30782000-30797000	Weak transcription	Gastric	stomach
2	chr6:30792400-30796400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:30794400-30798400	Enhancers	Breast Myoepithelial Primary Cells	Breast
4	chr6:30794400-30798400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr6:30794600-30796400	Enhancers	Sigmoid Colon	Sigmoid Colon
6	chr6:30794600-30796600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
7	chr6:30794600-30796800	Enhancers	Fetal Intestine Large	intestine
8	chr6:30794600-30796800	Enhancers	Stomach Mucosa	stomach
9	chr6:30794600-30796800	Enhancers	HUVEC	blood vessel
10	chr6:30794600-30796800	Enhancers	NH-A	brain
11	chr6:30794600-30797200	Enhancers	HMEC	breast
12	chr6:30794600-30797400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr6:30794800-30796400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:30794800-30796800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr6:30794800-30796800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:30794800-30796800	Enhancers	GM12878-XiMat	blood
17	chr6:30794800-30797000	Enhancers	NHLF	lung
18	chr6:30794800-30797200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:30794800-30797200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:30794800-30797200	Enhancers	Colonic Mucosa	Colon
21	chr6:30794800-30797200	Enhancers	Psoas Muscle	Psoas
22	chr6:30794800-30797400	Enhancers	Placenta	Placenta
23	chr6:30794800-30797800	Enhancers	Dnd41	blood
24	chr6:30795000-30796400	Enhancers	ES-I3 Cell Line	embryonic stem cell
25	chr6:30795000-30796600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
26	chr6:30795000-30798800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr6:30795000-30799000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
28	chr6:30795200-30798800	Flanking Active TSS	Thymus	Thymus
29	chr6:30795400-30797000	Enhancers	Esophagus	oesophagus
30	chr6:30795600-30796400	Enhancers	Liver	Liver
31	chr6:30795600-30796400	Flanking Active TSS	HepG2	liver
32	chr6:30795600-30797800	Enhancers	Primary hematopoietic stem cells	blood
33	chr6:30795600-30798000	Enhancers	Primary monocytes fromperipheralblood	blood
34	chr6:30795800-30796400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:30795800-30796400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:30795800-30796400	Flanking Active TSS	Adipose Nuclei	Adipose
37	chr6:30795800-30796400	Flanking Active TSS	Colon Smooth Muscle	Colon
38	chr6:30795800-30796400	Flanking Active TSS	Rectal Smooth Muscle	rectum
39	chr6:30795800-30796400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
40	chr6:30795800-30796400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
41	chr6:30795800-30796400	Flanking Active TSS	A549	lung
42	chr6:30795800-30796400	Flanking Active TSS	Hela-S3	cervix
43	chr6:30795800-30796800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr6:30795800-30796800	Enhancers	Cortex derived primary cultured neurospheres	brain
45	chr6:30795800-30796800	Enhancers	Aorta	Aorta
46	chr6:30795800-30796800	Enhancers	Brain Cingulate Gyrus	brain
47	chr6:30795800-30796800	Enhancers	Brain Hippocampus Middle	brain
48	chr6:30795800-30796800	Enhancers	Brain Inferior Temporal Lobe	brain
49	chr6:30795800-30796800	Enhancers	Fetal Heart	heart
50	chr6:30795800-30796800	Enhancers	Placenta Amnion	Placenta Amnion

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