Variant report

Variant	rs619797
Chromosome Location	chr10:6246038-6246039
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	chr10:6244367-6246094	GM12891	blood:	n/a	n/a
2	MXI1	chr10:6242644-6247076	SK-N-SH	brain:	n/a	n/a
3	MYC	chr10:6245945-6246145	MCF-7	breast:	n/a	n/a
4	MXI1	chr10:6244381-6246278	GM12878	blood:	n/a	n/a
5	POLR2A	chr10:6244469-6246266	H1-neurons	neurons:	n/a	n/a
6	TAF1	chr10:6245810-6247232	A549	lung:	n/a	n/a
7	TCF12	chr10:6243574-6247500	A549	lung:	n/a	chr10:6244120-6244127 chr10:6244121-6244131
8	POLR2A	chr10:6245863-6246753	A549	lung:	n/a	n/a
9	E2F6	chr10:6245470-6246543	H1-hESC	embryonic stem cell:	n/a	chr10:6245722-6245734 chr10:6245926-6245936
10	RAD21	chr10:6243486-6246230	SK-N-SH	brain:	n/a	chr10:6244125-6244135
11	SP1	chr10:6244436-6247427	A549	lung:	n/a	chr10:6246476-6246486
12	POU2F2	chr10:6246013-6247234	GM12878	blood:	n/a	chr10:6246755-6246763 chr10:6246817-6246828 chr10:6246750-6246768 chr10:6246818-6246828 chr10:6246749-6246770 chr10:6246814-6246832
13	MAX	chr10:6244130-6246578	MCF-7	breast:	n/a	chr10:6244170-6244180 chr10:6244173-6244183
14	POLR2A	chr10:6245827-6247121	H1-hESC	embryonic stem cell:	n/a	n/a
15	MYC	chr10:6245868-6246699	MCF10A-Er-Src	breast:	n/a	n/a
16	ZBTB7A	chr10:6245835-6246365	ECC-1	luminal epithelium:	n/a	n/a
17	SMC3	chr10:6242512-6247173	SK-N-SH	brain:	n/a	chr10:6245922-6245932 chr10:6243015-6243025
18	MXI1	chr10:6245540-6246046	H1-hESC	embryonic stem cell:	n/a	n/a
19	POLR2A	chr10:6244438-6246716	MCF10A-Er-Src	breast:	n/a	n/a
20	CTCF	chr10:6243513-6247466	A549	lung:	n/a	chr10:6244171-6244184 chr10:6246034-6246047 chr10:6245938-6245951 chr10:6246241-6246254 chr10:6245941-6245954
21	POLR2A	chr10:6244581-6247062	K562	blood:	n/a	n/a
22	CREB1	chr10:6246011-6246605	A549	lung:	n/a	n/a
23	HA-E2F1	chr10:6244414-6246646	MCF-7	breast:	n/a	chr10:6245722-6245734 chr10:6245926-6245936
24	EBF1	chr10:6245966-6246971	GM12878	blood:	n/a	chr10:6246715-6246724 chr10:6246715-6246724 chr10:6246713-6246726 chr10:6246713-6246724
25	POLR2A	chr10:6245839-6246687	A549	lung:	n/a	n/a
26	POLR2A	chr10:6245819-6246089	H1-hESC	embryonic stem cell:	n/a	n/a
27	POLR2A	chr10:6246010-6247458	U87	brain:	n/a	n/a
28	MYC	chr10:6246002-6246064	HUVEC	blood vessel:	n/a	n/a
29	MAX	chr10:6245923-6246584	ECC-1	luminal epithelium:	n/a	n/a
30	GATA3	chr10:6244277-6247528	A549	lung:	n/a	n/a
31	MAX	chr10:6242769-6246556	A549	lung:	n/a	chr10:6244170-6244180 chr10:6243866-6243875 chr10:6244173-6244183
32	JUND	chr10:6245865-6246722	A549	lung:	n/a	n/a
33	MAX	chr10:6245778-6246557	MCF-7	breast:	n/a	n/a
34	MXI1	chr10:6244137-6247434	IMR90	lung:	n/a	n/a
35	ZBTB33	chr10:6245624-6246090	A549	lung:	n/a	n/a
36	POLR2A	chr10:6245859-6246666	A549	lung:	n/a	n/a
37	ZBTB7A	chr10:6245838-6246383	ECC-1	luminal epithelium:	n/a	n/a
38	CTCF	chr10:6245960-6246110	GM06990	blood:	n/a	chr10:6246034-6246047
39	SIN3A	chr10:6243532-6247000	H1-hESC	embryonic stem cell:	n/a	chr10:6244188-6244202 chr10:6246143-6246154
40	POLR2A	chr10:6246010-6247464	U87	brain:	n/a	n/a
41	ESRRA	chr10:6244303-6246654	GM12878	blood:	n/a	n/a
42	EGR1	chr10:6246008-6246202	GM12878	blood:	n/a	chr10:6246085-6246099
43	EGR1	chr10:6245858-6246326	MCF-7	breast:	n/a	chr10:6246085-6246099
44	POLR2A	chr10:6244557-6246339	H1-neurons	neurons:	n/a	n/a
45	POLR2A	chr10:6245868-6246047	H1-hESC	embryonic stem cell:	n/a	n/a
46	POLR2A	chr10:6242449-6247290	GM12878	blood:	n/a	n/a
47	EGR1	chr10:6245986-6246166	GM12878	blood:	n/a	chr10:6246085-6246099
48	CHD1	chr10:6244151-6247539	IMR90	lung:	n/a	n/a
49	MYC	chr10:6244413-6246642	A549	lung:	n/a	n/a
50	MAX	chr10:6244246-6246224	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:6244444..6246172-chr11:60928588..60930441,2	MCF-7	breast:
2	chr10:6129825..6133257-chr10:6241985..6247329,10	MCF-7	breast:
3	chr10:6129204..6131748-chr10:6244207..6246414,2	K562	blood:
4	chr10:6183735..6189299-chr10:6241759..6246920,10	MCF-7	breast:
5	chr10:6245082..6247661-chr9:91147129..91149982,2	MCF-7	breast:
6	chr10:6143166..6145739-chr10:6245064..6246579,2	K562	blood:
7	chr10:6243696..6246547-chr17:56707857..56709473,2	MCF-7	breast:
8	chr10:6244869..6246858-chr17:56708954..56710918,2	MCF-7	breast:
9	chr10:6192153..6194563-chr10:6245038..6246551,2	MCF-7	breast:
10	chr10:6183938..6190482-chr10:6242008..6247032,17	MCF-7	breast:
11	chr10:6244272..6246403-chr13:37573169..37575216,2	MCF-7	breast:
12	chr10:6243668..6247308-chr10:6319585..6323356,5	MCF-7	breast:
13	chr10:6245084..6247522-chr10:6358973..6361369,2	MCF-7	breast:
14	chr10:6198072..6199793-chr10:6244896..6246657,2	MCF-7	breast:
15	chr10:6149017..6157788-chr10:6241652..6246346,17	MCF-7	breast:
16	chr10:6242187..6248014-chr10:6262246..6271624,18	MCF-7	breast:
17	chr10:6132741..6135647-chr10:6244936..6248119,3	MCF-7	breast:
18	chr10:6245455..6246346-chr10:6340008..6340562,2	MCF-7	breast:
19	chr10:6128377..6132115-chr10:6241834..6247197,6	MCF-7	breast:
20	chr10:6149112..6154904-chr10:6241492..6247373,13	MCF-7	breast:
21	chr10:6189894..6192661-chr10:6244759..6246996,2	MCF-7	breast:
22	chr10:6244071..6246577-chr11:62606915..62609638,2	MCF-7	breast:
23	chr10:6145584..6148508-chr10:6244741..6246500,2	MCF-7	breast:
24	chr10:6245444..6247830-chr10:6297779..6300544,2	MCF-7	breast:
25	chr10:6244951..6247440-chr10:6279322..6281493,5	MCF-7	breast:
26	chr10:6245319..6247600-chr17:59477846..59479369,2	MCF-7	breast:
27	chr10:6240729..6242580-chr10:6245113..6247243,2	K562	blood:
28	chr10:5930925..5933506-chr10:6244058..6246915,2	MCF-7	breast:
29	chr10:6242739..6248482-chr10:6257769..6263853,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213994	TF binding region
ENSG00000201581	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000170525	Chromatin interaction
ENSG00000167987	Chromatin interaction
ENSG00000215244	Chromatin interaction
ENSG00000134452	Chromatin interaction
ENSG00000212195	Chromatin interaction
ENSG00000120697	Chromatin interaction
ENSG00000134453	Chromatin interaction
ENSG00000263628	Chromatin interaction
ENSG00000120699	Chromatin interaction
ENSG00000134461	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs617245	0.92[AFR][1000 genomes]
rs672376	0.93[AFR][1000 genomes];1.00[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	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1040721	chr10:6155144-6322566	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS 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	31 gene(s)	inside rSNPs	diseases
3	nsv540476	chr10:6155144-6322566	Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv894817	chr10:6173416-6251252	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
6	nsv1041039	chr10:6217724-6354858	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent Enhancer 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 target site	28 gene(s)	inside rSNPs	diseases
7	nsv894832	chr10:6237156-6253651	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
8	nsv894833	chr10:6237156-6261704	Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
9	nsv894834	chr10:6237156-6272169	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
10	nsv521145	chr10:6241803-6246678	Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
11	nsv894835	chr10:6242176-6268422	Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
12	esv3441356	chr10:6243771-6246319	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6242600-6246400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr10:6242800-6246400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
3	chr10:6242800-6246400	Active TSS	Colon Smooth Muscle	Colon
4	chr10:6242800-6246400	Active TSS	Ovary	ovary
5	chr10:6242800-6246600	Active TSS	Placenta Amnion	Placenta Amnion
6	chr10:6242800-6246600	Active TSS	Psoas Muscle	Psoas
7	chr10:6242800-6247000	Active TSS	Pancreatic Islets	Pancreatic Islet
8	chr10:6242800-6247400	Active TSS	Fetal Kidney	kidney
9	chr10:6242800-6247800	Active TSS	Aorta	Aorta
10	chr10:6243000-6246600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
11	chr10:6243600-6246600	Active TSS	HSMMtube	muscle
12	chr10:6243600-6247200	Flanking Active TSS	Liver	Liver
13	chr10:6243600-6247200	Flanking Active TSS	Stomach Smooth Muscle	stomach
14	chr10:6243800-6247400	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
15	chr10:6244200-6246800	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr10:6244400-6246200	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr10:6244400-6246400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
18	chr10:6244400-6246400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr10:6244400-6246400	Active TSS	Brain Angular Gyrus	brain
20	chr10:6244400-6246600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
21	chr10:6244400-6246600	Active TSS	Small Intestine	intestine
22	chr10:6244600-6246200	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr10:6244600-6246200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
24	chr10:6244600-6246200	Active TSS	Primary T cells from cord blood	blood
25	chr10:6244600-6246200	Active TSS	Primary T helper naive cells from peripheral blood	blood
26	chr10:6244600-6246200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
27	chr10:6244600-6246200	Active TSS	Primary T killer memory cells from peripheral blood	blood
28	chr10:6244600-6246200	Active TSS	Brain Cingulate Gyrus	brain
29	chr10:6244600-6246200	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
30	chr10:6244600-6246200	Active TSS	Left Ventricle	heart
31	chr10:6244600-6246200	Active TSS	Lung	lung
32	chr10:6244600-6246200	Active TSS	Right Ventricle	heart
33	chr10:6244600-6246400	Active TSS	ES-I3 Cell Line	embryonic stem cell
34	chr10:6244600-6246400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr10:6244600-6246400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr10:6244600-6246400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
37	chr10:6244600-6246400	Active TSS	Primary T helper cells PMA-I stimulated	--
38	chr10:6244600-6246400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:6244600-6246400	Bivalent/Poised TSS	Brain Germinal Matrix	brain
40	chr10:6244600-6246400	Active TSS	Brain Hippocampus Middle	brain
41	chr10:6244600-6246400	Active TSS	Brain Inferior Temporal Lobe	brain
42	chr10:6244600-6246400	Active TSS	Brain Substantia Nigra	brain
43	chr10:6244600-6246400	Active TSS	Rectal Smooth Muscle	rectum
44	chr10:6244600-6246400	Active TSS	Stomach Mucosa	stomach
45	chr10:6244600-6246400	Active TSS	GM12878-XiMat	blood
46	chr10:6244600-6246400	Active TSS	HepG2	liver
47	chr10:6244600-6246400	Active TSS	NHDF-Ad	bronchial
48	chr10:6244600-6246400	Active TSS	Osteobl	bone
49	chr10:6244600-6246600	Active TSS	H9 Cell Line	embryonic stem cell
50	chr10:6244600-6246600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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