Variant report

Variant	rs16893699
Chromosome Location	chr6:28105889-28105890
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:20)
CpG islands
(count:0)
Chromatin interactive
region (count:21)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:20 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RUNX3	chr6:28104232-28105898	GM12878	blood:	n/a	n/a
2	TEAD4	chr6:28103938-28105918	K562	blood:	n/a	n/a
3	MXI1	chr6:28103900-28106335	SK-N-SH	brain:	n/a	n/a
4	RELA	chr6:28104091-28105972	GM18505	blood:	n/a	chr6:28105507-28105516 chr6:28105507-28105516
5	BCLAF1	chr6:28104259-28105925	GM12878	blood:	n/a	chr6:28105508-28105517
6	RELA	chr6:28104256-28105933	GM12891	blood:	n/a	chr6:28105507-28105516 chr6:28105507-28105516
7	RELA	chr6:28104399-28105920	GM19193	blood:	n/a	chr6:28105507-28105516 chr6:28105507-28105516
8	POLR2A	chr6:28104298-28105920	GM12878	blood:	n/a	n/a
9	JUN	chr6:28103947-28106728	K562	blood:	n/a	n/a
10	REST	chr6:28103743-28106079	H1-neurons	neurons:	n/a	n/a
11	POLR2A	chr6:28104294-28105913	Raji	blood:	n/a	n/a
12	TCF12	chr6:28104157-28105902	SK-N-SH	brain:	n/a	n/a
13	SPI1	chr6:28105116-28106014	GM12878	blood:	n/a	chr6:28105578-28105591 chr6:28105579-28105588 chr6:28105577-28105590
14	POLR2A	chr6:28104187-28106180	GM12891	blood:	n/a	n/a
15	MTA3	chr6:28104059-28105922	GM12878	blood:	n/a	n/a
16	POLR2A	chr6:28104293-28106091	H1-neurons	neurons:	n/a	n/a
17	POU2F2	chr6:28104940-28106003	GM12891	blood:	n/a	chr6:28105563-28105578 chr6:28105882-28105893
18	HCFC1	chr6:28103716-28106176	Hela-S3	cervix:	n/a	n/a
19	RELA	chr6:28105084-28106000	GM18951	blood:	n/a	chr6:28105507-28105516 chr6:28105507-28105516
20	MAX	chr6:28105458-28105918	K562	blood:	n/a	n/a

No data

(count:21 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28103775..28113920-chr6:28177995..28190115,32	K562	blood:
2	chr6:27805383..27807774-chr6:28104061..28105899,2	MCF-7	breast:
3	chr6:28104411..28106188-chr6:28216933..28220029,3	MCF-7	breast:
4	chr6:27857129..27859629-chr6:28105020..28108475,3	K562	blood:
5	chr6:28102806..28106129-chr6:28190797..28194598,4	K562	blood:
6	chr6:27802664..27806163-chr6:28103303..28107418,3	K562	blood:
7	chr6:28104139..28106070-chr6:28185714..28187223,2	MCF-7	breast:
8	chr6:27798199..27799834-chr6:28104251..28105914,2	K562	blood:
9	chr6:28103055..28111556-chr6:28296771..28308203,17	K562	blood:
10	chr6:28047155..28050172-chr6:28104375..28106249,3	K562	blood:
11	chr6:28105533..28107833-chr6:28443278..28445327,2	MCF-7	breast:
12	chr6:28103114..28106211-chr6:28315199..28319125,3	K562	blood:
13	chr6:28105200..28107128-chr6:28213873..28216450,2	K562	blood:
14	chr6:28091137..28098786-chr6:28103559..28111884,14	MCF-7	breast:
15	chr6:28101857..28106060-chr6:28315199..28321034,6	K562	blood:
16	chr6:28100317..28107200-chr6:28184436..28191088,8	MCF-7	breast:
17	chr6:27775515..27777232-chr6:28105778..28107356,2	K562	blood:
18	chr6:28105046..28106642-chr6:28218504..28220928,2	K562	blood:
19	chr6:28099723..28110178-chr6:28301599..28306918,14	K562	blood:
20	chr6:28102723..28113786-chr6:28183725..28194756,41	K562	blood:
21	chr6:28103203..28105926-chr6:28219159..28220709,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF192-1	chr6:28104627-28107456	ENSG00000261839.1

No data

Variant related genes	Relation type
ZKSCAN8	TF binding region
ZSCAN16-AS1	TF binding region
ENSG00000235109	Chromatin interaction
ENSG00000197153	Chromatin interaction
ENSG00000272009	Chromatin interaction
ENSG00000197914	Chromatin interaction
ENSG00000185130	Chromatin interaction
ENSG00000196747	Chromatin interaction
ENSG00000189298	Chromatin interaction
ENSG00000196812	Chromatin interaction
ENSG00000137185	Chromatin interaction
ENSG00000184348	Chromatin interaction
ENSG00000233822	Chromatin interaction
ENSG00000176933	Chromatin interaction
ENSG00000187626	Chromatin interaction
ENSG00000197279	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1150703	1.00[GIH][hapmap]
rs1150712	1.00[GIH][hapmap]
rs11965542	1.00[GIH][hapmap]
rs16893603	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs16893619	0.82[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs16893670	0.91[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs16893673	0.91[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.99[ASN][1000 genomes]
rs16893741	0.95[ASN][1000 genomes]
rs16893755	1.00[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs16893892	1.00[GIH][hapmap]
rs59249466	0.93[ASN][1000 genomes]
rs988084	1.00[GIH][hapmap]

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28103200-28106000	Active TSS	HUES6 Cell Line	embryonic stem cell
2	chr6:28103400-28106000	Active TSS	HUES48 Cell Line	embryonic stem cell
3	chr6:28103600-28106000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr6:28103800-28106000	Flanking Active TSS	Primary B cells from cord blood	blood
5	chr6:28103800-28106000	Flanking Active TSS	Primary hematopoietic stem cells	blood
6	chr6:28103800-28106000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
7	chr6:28104000-28106000	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
8	chr6:28104000-28106000	Active TSS	Fetal Brain Male	brain
9	chr6:28104000-28106000	Active TSS	Fetal Muscle Trunk	muscle
10	chr6:28104000-28106200	Active TSS	Aorta	Aorta
11	chr6:28104600-28106000	Flanking Active TSS	Primary T cells fromperipheralblood	blood
12	chr6:28104800-28106000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
13	chr6:28104800-28106000	Flanking Active TSS	NHEK	skin
14	chr6:28105000-28106000	Flanking Active TSS	Adipose Nuclei	Adipose
15	chr6:28105200-28106000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
16	chr6:28105200-28106000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:28105200-28106000	Flanking Active TSS	Fetal Lung	lung
18	chr6:28105200-28106000	Flanking Active TSS	Hela-S3	cervix
19	chr6:28105200-28106000	Flanking Active TSS	Osteobl	bone
20	chr6:28105200-28106200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:28105200-28106200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr6:28105400-28106000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr6:28105400-28106000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:28105400-28106000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:28105400-28106000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
26	chr6:28105400-28106000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
27	chr6:28105400-28106000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
28	chr6:28105400-28106000	Flanking Active TSS	Muscle Satellite Cultured Cells	--
29	chr6:28105400-28106000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:28105400-28106000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr6:28105400-28106000	Flanking Active TSS	Brain Germinal Matrix	brain
32	chr6:28105400-28106000	Flanking Active TSS	Brain Hippocampus Middle	brain
33	chr6:28105400-28106000	Flanking Active TSS	Fetal Kidney	kidney
34	chr6:28105400-28106000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
35	chr6:28105400-28106000	Enhancers	Sigmoid Colon	Sigmoid Colon
36	chr6:28105400-28106000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
37	chr6:28105400-28106000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
38	chr6:28105400-28106000	Flanking Active TSS	HSMMtube	muscle
39	chr6:28105400-28106200	Flanking Active TSS	Primary T cells from cord blood	blood
40	chr6:28105400-28106200	Flanking Active TSS	Colon Smooth Muscle	Colon
41	chr6:28105400-28106200	Flanking Active TSS	K562	blood
42	chr6:28105400-28106600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
43	chr6:28105400-28106600	Flanking Active TSS	Dnd41	blood
44	chr6:28105600-28106000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
45	chr6:28105600-28106000	Flanking Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr6:28105600-28106000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:28105600-28106000	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
48	chr6:28105600-28106000	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
49	chr6:28105600-28106000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
50	chr6:28105600-28106000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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