Variant report

Variant	rs3778473
Chromosome Location	chr6:109695976-109695977
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:109695774-109696079	K562	blood:	n/a	n/a
2	POLR2A	chr6:109695884-109696179	GM12891	blood:	n/a	n/a
3	POLR2A	chr6:109685661-109704818	K562	blood:	n/a	n/a
4	POLR2A	chr6:109695667-109696147	GM12891	blood:	n/a	n/a
5	POLR2A	chr6:109694462-109696236	GM12878	blood:	n/a	n/a
6	POLR2A	chr6:109695679-109696191	GM12892	blood:	n/a	n/a
7	CEBPB	chr6:109695754-109696117	MCF-7	breast:	n/a	chr6:109696098-109696111
8	POLR2A	chr6:109695906-109696087	H1-hESC	embryonic stem cell:	n/a	n/a
9	POLR2A	chr6:109690802-109696191	HepG2	liver:	n/a	n/a
10	POLR2A	chr6:109694507-109696262	GM12892	blood:	n/a	n/a
11	POLR2A	chr6:109695764-109696195	K562	blood:	n/a	n/a
12	POLR2A	chr6:109694488-109696198	GM12878	blood:	n/a	n/a
13	POLR2A	chr6:109695653-109696203	GM12878	blood:	n/a	n/a
14	NR2F2	chr6:109695582-109696035	MCF-7	breast:	n/a	n/a
15	GATA3	chr6:109695451-109696106	MCF-7	breast:	n/a	n/a
16	POLR2A	chr6:109694475-109696323	K562	blood:	n/a	n/a
17	POLR2A	chr6:109695818-109696213	Hela-S3	cervix:	n/a	n/a
18	POLR2A	chr6:109695857-109696159	K562	blood:	n/a	n/a
19	POLR2A	chr6:109695856-109696010	HepG2	liver:	n/a	n/a
20	GATA3	chr6:109695406-109696126	MCF-7	breast:	n/a	n/a
21	TCF7L2	chr6:109695763-109696112	MCF-7	breast:	n/a	chr6:109695950-109695959 chr6:109695947-109695961
22	POLR2A	chr6:109695807-109696216	Hela-S3	cervix:	n/a	n/a
23	POLR2A	chr6:109694665-109696086	HepG2	liver:	n/a	n/a
24	POLR2A	chr6:109694798-109696318	GM12892	blood:	n/a	n/a
25	POLR2A	chr6:109695837-109696143	A549	lung:	n/a	n/a
26	POLR2A	chr6:109695800-109696133	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:109626057..109628576-chr6:109694970..109697513,2	K562	blood:

Variant related genes	Relation type
CD164	TF binding region
ENSG00000201023	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs11963133	0.86[ASN][1000 genomes]
rs1321207	1.00[EUR][1000 genomes]
rs28575685	1.00[ASN][1000 genomes]
rs3757227	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757233	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57456332	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57919077	1.00[ASN][1000 genomes]
rs58026913	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58535912	1.00[ASN][1000 genomes]
rs59233903	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6904271	1.00[ASN][1000 genomes]
rs6922897	1.00[ASN][1000 genomes]
rs73762717	1.00[ASN][1000 genomes]
rs7753224	1.00[EUR][1000 genomes]
rs9400278	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487133	1.00[EUR][1000 genomes]

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109675000-109700800	Strong transcription	Placenta	Placenta
2	chr6:109677000-109698200	Strong transcription	Fetal Intestine Large	intestine
3	chr6:109677800-109700600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr6:109678800-109699000	Strong transcription	Dnd41	blood
5	chr6:109679200-109700400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr6:109679400-109700600	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr6:109680400-109697200	Weak transcription	Fetal Brain Male	brain
8	chr6:109680600-109700600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:109682600-109700800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
10	chr6:109683200-109699800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
11	chr6:109683800-109700600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:109684000-109702400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:109684400-109702400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr6:109684600-109700200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr6:109684600-109700400	Strong transcription	H1 Cell Line	embryonic stem cell
16	chr6:109684800-109700200	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr6:109685800-109700600	Strong transcription	HUES48 Cell Line	embryonic stem cell
18	chr6:109686400-109699000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:109686600-109700200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr6:109686800-109700200	Strong transcription	HSMM	muscle
21	chr6:109687400-109699200	Strong transcription	HMEC	breast
22	chr6:109687400-109700200	Strong transcription	NH-A	brain
23	chr6:109687600-109700200	Strong transcription	NHEK	skin
24	chr6:109688200-109699400	Strong transcription	HepG2	liver
25	chr6:109689800-109697600	Strong transcription	Sigmoid Colon	Sigmoid Colon
26	chr6:109690600-109701800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr6:109691600-109699600	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr6:109692000-109700000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr6:109692200-109697600	Genic enhancers	Primary hematopoietic stem cells	blood
30	chr6:109692800-109696200	Genic enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr6:109692800-109696200	Genic enhancers	Skeletal Muscle Female	skeletal muscle
32	chr6:109692800-109700200	Strong transcription	NHLF	lung
33	chr6:109693000-109699200	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr6:109693000-109699600	Strong transcription	Fetal Kidney	kidney
35	chr6:109693200-109696200	Genic enhancers	Primary T killer memory cells from peripheral blood	blood
36	chr6:109693200-109696200	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
37	chr6:109693200-109696200	Genic enhancers	K562	blood
38	chr6:109693200-109696200	Genic enhancers	Monocytes-CD14+_RO01746	blood
39	chr6:109693200-109696400	Genic enhancers	Primary T cells from cord blood	blood
40	chr6:109693200-109698200	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
41	chr6:109693200-109699200	Genic enhancers	Primary T helper cells PMA-I stimulated	--
42	chr6:109693200-109699200	Strong transcription	Fetal Lung	lung
43	chr6:109693400-109696000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
44	chr6:109693400-109696200	Genic enhancers	Adipose Nuclei	Adipose
45	chr6:109693400-109696600	Genic enhancers	Primary monocytes fromperipheralblood	blood
46	chr6:109693400-109698800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr6:109693400-109699200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr6:109693400-109702600	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr6:109693600-109696400	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
50	chr6:109693600-109699400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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