Variant report

Variant	rs534599064
Chromosome Location	chr3:136469602-136469603
allele	A/C
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	chr3:136468906-136472752	PBDE	blood:	n/a	n/a
2	TBP	chr3:136468937-136470513	Hela-S3	cervix:	n/a	n/a
3	FOS	chr3:136469523-136469952	MCF10A-Er-Src	breast:	n/a	chr3:136469615-136469624 chr3:136469671-136469683
4	ARID3A	chr3:136469214-136470334	K562	blood:	n/a	n/a
5	E2F4	chr3:136469260-136469873	MCF10A-Er-Src	breast:	n/a	chr3:136469293-136469302
6	ARID3A	chr3:136469160-136469611	HepG2	liver:	n/a	n/a
7	CHD1	chr3:136468963-136472242	GM12878	blood:	n/a	chr3:136470257-136470267
8	POLR2A	chr3:136468959-136472839	GM12891	blood:	n/a	n/a
9	TCF7L2	chr3:136468447-136469700	HEK293	kidney:	n/a	chr3:136469328-136469335
10	POLR2A	chr3:136469518-136469622	K562	blood:	n/a	n/a
11	NFIC	chr3:136469510-136471835	SK-N-SH	brain:	n/a	n/a
12	MXI1	chr3:136469122-136470448	Hela-S3	cervix:	n/a	n/a
13	RFX5	chr3:136469092-136470746	Hela-S3	cervix:	n/a	chr3:136469294-136469303
14	IRF1	chr3:136469440-136470477	K562	blood:	n/a	chr3:136470255-136470269
15	RAD21	chr3:136468997-136472564	SK-N-SH	brain:	n/a	chr3:136471510-136471523 chr3:136471185-136471204 chr3:136471188-136471201 chr3:136471511-136471525 chr3:136471245-136471257 chr3:136471189-136471203 chr3:136471513-136471527 chr3:136471247-136471261 chr3:136471243-136471262 chr3:136470751-136470764
16	MYC	chr3:136469203-136472639	K562	blood:	n/a	chr3:136470730-136470740 chr3:136470527-136470536 chr3:136470260-136470270 chr3:136471424-136471434
17	MXI1	chr3:136469242-136472350	IMR90	lung:	n/a	chr3:136472194-136472203
18	POLR2A	chr3:136469516-136472552	U87	brain:	n/a	n/a
19	MAZ	chr3:136469350-136472412	IMR90	lung:	n/a	chr3:136470730-136470740 chr3:136470527-136470536 chr3:136470260-136470270 chr3:136471424-136471434
20	POLR2A	chr3:136469048-136469679	HepG2	liver:	n/a	n/a
21	MXI1	chr3:136469517-136472913	SK-N-SH	brain:	n/a	chr3:136472194-136472203
22	GATA1	chr3:136468374-136470431	PBDE	blood:	n/a	chr3:136470275-136470286 chr3:136470111-136470120 chr3:136469391-136469407 chr3:136470108-136470124 chr3:136469393-136469405
23	POLR2A	chr3:136469086-136469749	Hela-S3	cervix:	n/a	n/a
24	FOS	chr3:136469471-136469994	MCF10A-Er-Src	breast:	n/a	chr3:136469615-136469624 chr3:136469671-136469683
25	IRF1	chr3:136469055-136469812	K562	blood:	n/a	chr3:136469403-136469417 chr3:136469403-136469417
26	POLR2A	chr3:136468958-136472707	MCF10A-Er-Src	breast:	n/a	n/a
27	CHD1	chr3:136468843-136472737	IMR90	lung:	n/a	chr3:136470257-136470267
28	POLR2A	chr3:136469045-136469635	GM12878	blood:	n/a	n/a
29	HCFC1	chr3:136468840-136472758	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr3:136466613..136474326-chr3:136579481..136583133,10	K562	blood:
2	chr3:136453394..136456450-chr3:136469548..136472199,3	K562	blood:
3	chr3:136468701..136475672-chr3:136535815..136540749,9	K562	blood:
4	chr3:136350170..136353597-chr3:136468835..136472616,3	MCF-7	breast:
5	chr3:136460807..136463236-chr3:136469569..136471141,2	MCF-7	breast:
6	chr3:136208388..136211090-chr3:136467197..136470066,2	K562	blood:
7	chr3:136447967..136449476-chr3:136469163..136470945,2	MCF-7	breast:
8	chr3:135912902..135916874-chr3:136469598..136473232,8	MCF-7	breast:
9	chr3:136469311..136474326-chr3:136579207..136583133,7	K562	blood:
10	chr3:136233567..136235148-chr3:136468458..136469958,2	K562	blood:
11	chr3:136334079..136336516-chr3:136469054..136471144,3	MCF-7	breast:
12	chr3:136469358..136473351-chr3:136579831..136582888,9	MCF-7	breast:
13	chr3:136468701..136470951-chr3:136535903..136538830,3	K562	blood:

Variant related genes	Relation type
ENSG00000261758	TF binding region
ENSG00000251708	Chromatin interaction
ENSG00000239213	Chromatin interaction
ENSG00000168917	Chromatin interaction
ENSG00000174579	Chromatin interaction
ENSG00000240695	Chromatin interaction
ENSG00000158092	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877529	chr3:136364511-136487559	ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv1006737	chr3:136466188-136530743	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
3	esv3423516	chr3:136469287-136472135	Flanking Active TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136449000-136470000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:136454200-136470000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:136457400-136470000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:136458400-136470000	Weak transcription	Esophagus	oesophagus
5	chr3:136465800-136470000	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:136468000-136469800	Enhancers	Primary B cells from peripheral blood	blood
7	chr3:136468000-136470000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr3:136468200-136473000	Active TSS	A549	lung
9	chr3:136468400-136470000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr3:136468400-136470000	Weak transcription	Pancreas	Pancrea
11	chr3:136468400-136470000	Weak transcription	Stomach Mucosa	stomach
12	chr3:136468400-136470200	Weak transcription	Gastric	stomach
13	chr3:136468400-136472000	Active TSS	NHDF-Ad	bronchial
14	chr3:136468400-136472200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:136468400-136472200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr3:136468400-136472600	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:136468600-136469800	Flanking Active TSS	HUVEC	blood vessel
18	chr3:136468600-136469800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
19	chr3:136468600-136470000	Weak transcription	Lung	lung
20	chr3:136468600-136470400	Flanking Active TSS	Primary hematopoietic stem cells	blood
21	chr3:136468600-136471400	Active TSS	Right Atrium	heart
22	chr3:136468600-136472200	Active TSS	Breast Myoepithelial Primary Cells	Breast
23	chr3:136468800-136469800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:136468800-136469800	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
25	chr3:136468800-136469800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:136468800-136469800	Flanking Active TSS	Dnd41	blood
27	chr3:136468800-136470000	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
28	chr3:136468800-136470200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
29	chr3:136468800-136470400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr3:136468800-136472000	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:136468800-136472000	Active TSS	HMEC	breast
32	chr3:136468800-136472200	Active TSS	GM12878-XiMat	blood
33	chr3:136469000-136469800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
34	chr3:136469000-136469800	Flanking Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:136469000-136470000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr3:136469000-136470000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
37	chr3:136469000-136470000	Flanking Active TSS	Primary T cells from cord blood	blood
38	chr3:136469000-136470000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
39	chr3:136469000-136470000	Flanking Active TSS	Fetal Brain Male	brain
40	chr3:136469000-136470400	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
41	chr3:136469000-136470400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
42	chr3:136469000-136470400	Flanking Active TSS	Adipose Nuclei	Adipose
43	chr3:136469000-136470600	Flanking Active TSS	Primary B cells from cord blood	blood
44	chr3:136469000-136471800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr3:136469000-136471800	Active TSS	Rectal Mucosa Donor 29	rectum
46	chr3:136469000-136471800	Active TSS	Thymus	Thymus
47	chr3:136469000-136471800	Active TSS	HepG2	liver
48	chr3:136469000-136472000	Active TSS	Fetal Kidney	kidney
49	chr3:136469000-136472000	Active TSS	Hela-S3	cervix
50	chr3:136469000-136472200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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