Variant report

Variant	rs6900610
Chromosome Location	chr6:26273955-26273956
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:87)
CpG islands
(count:0)
Chromatin interactive
region (count:25)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:87 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:26270354-26274437	Raji	blood:	n/a	n/a
2	POLR2A	chr6:26272932-26274224	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr6:26266613-26275023	H1-hESC	embryonic stem cell:	n/a	n/a
4	CHD1	chr6:26270342-26274429	GM12878	blood:	n/a	n/a
5	POLR2A	chr6:26272987-26274217	H1-hESC	embryonic stem cell:	n/a	n/a
6	POLR2A	chr6:26272943-26274805	GM12892	blood:	n/a	n/a
7	CHD1	chr6:26269438-26274500	H1-hESC	embryonic stem cell:	n/a	n/a
8	POLR2A	chr6:26272992-26274381	GM18526	blood:	n/a	n/a
9	POLR2A	chr6:26268846-26274052	Hela-S3	cervix:	n/a	n/a
10	POLR2A	chr6:26269656-26274808	H1-hESC	embryonic stem cell:	n/a	n/a
11	POLR2A	chr6:26273727-26274144	HepG2	liver:	n/a	n/a
12	FOXM1	chr6:26273865-26274607	GM12878	blood:	n/a	n/a
13	POLR2A	chr6:26272087-26274531	HUVEC	blood vessel:	n/a	n/a
14	POLR2A	chr6:26273003-26274015	A549	lung:	n/a	n/a
15	POLR2A	chr6:26272991-26274462	GM19099	blood:	n/a	n/a
16	POLR2A	chr6:26272983-26274442	GM12892	blood:	n/a	n/a
17	BCLAF1	chr6:26272899-26274569	GM12878	blood:	n/a	n/a
18	RELA	chr6:26272748-26274560	GM10847	blood:	n/a	n/a
19	POLR2A	chr6:26272453-26274170	GM15510	blood:	n/a	n/a
20	TCF12	chr6:26272814-26274269	A549	lung:	n/a	chr6:26273093-26273100
21	POLR2A	chr6:26269040-26274454	Hela-S3	cervix:	n/a	n/a
22	POLR2A	chr6:26272955-26274129	GM12891	blood:	n/a	n/a
23	POLR2A	chr6:26272995-26274194	GM12878	blood:	n/a	n/a
24	POLR2A	chr6:26272996-26274182	GM19193	blood:	n/a	n/a
25	PML	chr6:26272667-26274707	GM12878	blood:	n/a	n/a
26	GTF3C2	chr6:26273725-26274293	Hela-S3	cervix:	n/a	n/a
27	POLR2A	chr6:26272821-26274028	U87	brain:	n/a	n/a
28	POLR2A	chr6:26272888-26274370	Hela-S3	cervix:	n/a	n/a
29	MTA3	chr6:26269886-26274743	GM12878	blood:	n/a	n/a
30	RPC155	chr6:26273659-26274094	Hela-S3	cervix:	n/a	n/a
31	POLR2A	chr6:26272960-26274529	GM12891	blood:	n/a	n/a
32	JUND	chr6:26273651-26273983	A549	lung:	n/a	n/a
33	POLR2A	chr6:26272950-26274198	HUVEC	blood vessel:	n/a	n/a
34	POLR2A	chr6:26272872-26274688	GM12892	blood:	n/a	n/a
35	POLR2A	chr6:26272431-26274472	GM18951	blood:	n/a	n/a
36	BCLAF1	chr6:26273913-26274456	GM12878	blood:	n/a	n/a
37	POLR2A	chr6:26272950-26274626	GM12891	blood:	n/a	n/a
38	FOXM1	chr6:26272807-26274345	GM12878	blood:	n/a	n/a
39	TAF7	chr6:26268962-26274860	H1-hESC	embryonic stem cell:	n/a	n/a
40	YY1	chr6:26273798-26274454	A549	lung:	n/a	n/a
41	ATF3	chr6:26273483-26274109	A549	lung:	n/a	n/a
42	POLR2A	chr6:26272937-26274449	GM12892	blood:	n/a	n/a
43	POLR2A	chr6:26272347-26274698	GM12878	blood:	n/a	n/a
44	POLR2A	chr6:26272983-26274608	GM12891	blood:	n/a	n/a
45	POLR2A	chr6:26273031-26274147	GM10847	blood:	n/a	n/a
46	REST	chr6:26272883-26274275	A549	lung:	n/a	n/a
47	YY1	chr6:26273954-26274536	GM12891	blood:	n/a	n/a
48	POU2F2	chr6:26273839-26274048	GM12878	blood:	n/a	n/a
49	POLR2A	chr6:26268330-26275103	MCF-7	breast:	n/a	n/a
50	POLR2A	chr6:26272811-26274325	HUVEC	blood vessel:	n/a	n/a

No data

(count:25 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:26273638..26274247-chr9:114245827..114246827,2	Hela-S3	cervix:
2	chr6:26216502..26217073-chr6:26273264..26274587,3	Hela-S3	cervix:
3	chr6:26272978..26274527-chr6:27776343..27778592,2	MCF-7	breast:
4	chr6:26271163..26276024-chr6:27111926..27116309,5	MCF-7	breast:
5	chr13:21258740..21261103-chr6:26273602..26276161,2	MCF-7	breast:
6	chr6:26270357..26275628-chr6:27773210..27778290,5	MCF-7	breast:
7	chr6:26273199..26275817-chr6:26322608..26324495,2	MCF-7	breast:
8	chr6:26270978..26274693-chr6:27098356..27103484,7	MCF-7	breast:
9	chr6:26270164..26274435-chr6:27112425..27114820,4	MCF-7	breast:
10	chr6:26270273..26274919-chr6:27857077..27861037,6	MCF-7	breast:
11	chr6:26024260..26027949-chr6:26272859..26275159,3	MCF-7	breast:
12	chr6:26273305..26276123-chr6:26535998..26538001,3	K562	blood:
13	chr6:26271682..26274545-chr6:27832998..27834644,2	MCF-7	breast:
14	chr2:191744361..191746258-chr6:26273024..26275640,2	MCF-7	breast:
15	chr3:179958284..179960815-chr6:26273397..26275573,2	MCF-7	breast:
16	chr6:26033313..26036097-chr6:26273427..26274930,2	MCF-7	breast:
17	chr19:1268856..1271453-chr6:26271863..26274067,2	MCF-7	breast:
18	chr6:26269718..26276565-chr6:27099393..27105112,10	MCF-7	breast:
19	chr14:50153414..50155005-chr6:26272692..26275211,2	MCF-7	breast:
20	chr14:53257822..53258704-chr6:26273602..26274487,2	Hela-S3	cervix:
21	chr13:36919647..36921156-chr6:26271932..26274514,2	MCF-7	breast:
22	chr1:145382579..145383235-chr6:26273195..26274009,2	Hela-S3	cervix:
23	chr12:100591588..100593211-chr6:26271479..26273991,2	MCF-7	breast:
24	chr1:156252625..156254328-chr6:26272141..26274407,2	MCF-7	breast:
25	chr6:26020614..26023729-chr6:26272152..26276212,4	MCF-7	breast:

No data

Variant related genes	Relation type
HIST1H3G	TF binding region
HIST1H2APS4	TF binding region
ENSG00000201558	Chromatin interaction
ENSG00000133104	Chromatin interaction
ENSG00000196176	Chromatin interaction
ENSG00000115419	Chromatin interaction
ENSG00000198366	Chromatin interaction
ENSG00000196747	Chromatin interaction
ENSG00000100522	Chromatin interaction
ENSG00000197153	Chromatin interaction
ENSG00000196787	Chromatin interaction
ENSG00000100479	Chromatin interaction
ENSG00000187990	Chromatin interaction
ENSG00000124529	Chromatin interaction
ENSG00000197903	Chromatin interaction
ENSG00000120664	Chromatin interaction
ENSG00000075089	Chromatin interaction
ENSG00000233224	Chromatin interaction
ENSG00000185130	Chromatin interaction
ENSG00000203813	Chromatin interaction
ENSG00000099622	Chromatin interaction
ENSG00000267493	Chromatin interaction
ENSG00000217862	Chromatin interaction
ENSG00000124635	Chromatin interaction
ENSG00000265565	Chromatin interaction
ENSG00000136813	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000198374	Chromatin interaction
ENSG00000163472	Chromatin interaction
ENSG00000137259	Chromatin interaction

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs58877025	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60202454	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6900192	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6901096	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6924986	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73393494	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73395344	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73395352	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7746636	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7749338	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029920	chr6:25638507-26585842	Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
2	nsv538162	chr6:25638507-26585842	Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1215 gene(s)	inside rSNPs	diseases
3	nsv1030351	chr6:25813178-26352046	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1189 gene(s)	inside rSNPs	diseases
4	nsv1023453	chr6:25853830-26528250	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1201 gene(s)	inside rSNPs	diseases
5	nsv1025237	chr6:25874326-26280867	Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
6	nsv538163	chr6:25874326-26280867	Enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1166 gene(s)	inside rSNPs	diseases
7	nsv428137	chr6:25987413-26351920	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1181 gene(s)	inside rSNPs	diseases
8	nsv916992	chr6:25991630-26280921	Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1159 gene(s)	inside rSNPs	diseases
9	nsv1028232	chr6:26005449-26319756	Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1171 gene(s)	inside rSNPs	diseases
10	nsv870314	chr6:26008435-26280807	Flanking Active TSS Enhancers Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1151 gene(s)	inside rSNPs	diseases
11	nsv1023457	chr6:26014014-26305407	Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1170 gene(s)	inside rSNPs	diseases
12	nsv1023979	chr6:26026870-26287399	Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1113 gene(s)	inside rSNPs	diseases
13	nsv1015782	chr6:26026870-26323895	Active TSS Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1114 gene(s)	inside rSNPs	diseases
14	nsv1018665	chr6:26026870-26352046	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1116 gene(s)	inside rSNPs	diseases
15	nsv601173	chr6:26239404-26322524	Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	184 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:26269000-26274200	Active TSS	iPS-20b Cell Line	embryonic stem cell
2	chr6:26269000-26274800	Active TSS	iPS-15b Cell Line	embryonic stem cell
3	chr6:26269200-26274600	Active TSS	ES-I3 Cell Line	embryonic stem cell
4	chr6:26269200-26274600	Active TSS	iPS-18 Cell Line	embryonic stem cell
5	chr6:26269400-26274400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
6	chr6:26269400-26274400	Active TSS	HUES48 Cell Line	embryonic stem cell
7	chr6:26269400-26274800	Active TSS	H9 Cell Line	embryonic stem cell
8	chr6:26269400-26275000	Active TSS	H1 Cell Line	embryonic stem cell
9	chr6:26269800-26274400	Active TSS	HUES6 Cell Line	embryonic stem cell
10	chr6:26269800-26274400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
11	chr6:26269800-26274800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:26269800-26274800	Active TSS	NHLF	lung
13	chr6:26270000-26274200	Active TSS	HUES64 Cell Line	embryonic stem cell
14	chr6:26270000-26274600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:26270000-26274800	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr6:26270200-26274400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr6:26270200-26274800	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr6:26270400-26274200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:26270400-26275400	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:26270600-26274400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr6:26270600-26274600	Active TSS	Dnd41	blood
22	chr6:26270600-26274800	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr6:26270600-26275000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
24	chr6:26270800-26274600	Active TSS	GM12878-XiMat	blood
25	chr6:26271000-26274000	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
26	chr6:26271200-26274400	Active TSS	Esophagus	oesophagus
27	chr6:26271200-26274400	Active TSS	Small Intestine	intestine
28	chr6:26271200-26274600	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
29	chr6:26271200-26274600	Bivalent/Poised TSS	Brain Substantia Nigra	brain
30	chr6:26271200-26274800	Active TSS	Right Ventricle	heart
31	chr6:26271200-26274800	Active TSS	HSMM	muscle
32	chr6:26271400-26274400	Bivalent/Poised TSS	Brain Angular Gyrus	brain
33	chr6:26271400-26274600	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
34	chr6:26271400-26274800	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr6:26271400-26274800	Active TSS	Aorta	Aorta
36	chr6:26271400-26274800	Bivalent/Poised TSS	Colon Smooth Muscle	Colon
37	chr6:26271600-26274600	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
38	chr6:26271600-26274800	Active TSS	Colonic Mucosa	Colon
39	chr6:26271600-26274800	Active TSS	Placenta Amnion	Placenta Amnion
40	chr6:26271600-26274800	Active TSS	Sigmoid Colon	Sigmoid Colon
41	chr6:26272000-26274600	Active TSS	Primary T killer memory cells from peripheral blood	blood
42	chr6:26272000-26274600	Active TSS	Duodenum Mucosa	Duodenum
43	chr6:26272000-26274600	Active TSS	Thymus	Thymus
44	chr6:26272000-26274800	Active TSS	HSMMtube	muscle
45	chr6:26272400-26274400	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
46	chr6:26272400-26274400	Active TSS	Fetal Heart	heart
47	chr6:26272400-26274400	Active TSS	Fetal Kidney	kidney
48	chr6:26272400-26274600	Active TSS	Stomach Mucosa	stomach
49	chr6:26272400-26274800	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr6:26272400-26274800	Active TSS	Fetal Intestine Small	intestine

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