Variant report

Variant	rs34667630
Chromosome Location	chr1:228269917-228269918
allele	-/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	SMC3	chr1:228269888-228270378	K562	blood:	n/a	chr1:228270283-228270297 chr1:228270283-228270293
2	RUNX3	chr1:228269804-228270614	GM12878	blood:	n/a	n/a
3	POLR2A	chr1:228269815-228272522	GM12892	blood:	n/a	n/a
4	POLR2A	chr1:228269194-228269967	H1-hESC	embryonic stem cell:	n/a	n/a
5	MYC	chr1:228269812-228270766	MCF10A-Er-Src	breast:	n/a	chr1:228269970-228269981 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
6	HMGN3	chr1:228269758-228271532	K562	blood:	n/a	n/a
7	POLR2A	chr1:228269908-228270822	U87	brain:	n/a	n/a
8	YY1	chr1:228269771-228271394	HepG2	liver:	n/a	chr1:228270281-228270290 chr1:228270413-228270421 chr1:228270415-228270423 chr1:228270279-228270293 chr1:228269868-228269879 chr1:228270412-228270422
9	POLR2A	chr1:228268950-228270812	GM12891	blood:	n/a	n/a
10	POLR2A	chr1:228269198-228271877	GM19193	blood:	n/a	n/a
11	MXI1	chr1:228269786-228272826	IMR90	lung:	n/a	chr1:228269970-228269979
12	YY1	chr1:228269760-228269988	K562	blood:	n/a	chr1:228269868-228269879
13	POLR2A	chr1:228269793-228270676	HCT-116	colon:	n/a	n/a
14	MAX	chr1:228269761-228270803	ECC-1	luminal epithelium:	n/a	chr1:228269763-228269773 chr1:228269970-228269981 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
15	MAX	chr1:228269375-228270644	H1-hESC	embryonic stem cell:	n/a	chr1:228269763-228269773 chr1:228269970-228269981 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
16	E2F6	chr1:228268914-228270468	K562	blood:	n/a	chr1:228270281-228270290 chr1:228270206-228270215 chr1:228270312-228270321
17	TAF1	chr1:228269811-228270592	A549	lung:	n/a	n/a
18	MAX	chr1:228269884-228270483	HepG2	liver:	n/a	chr1:228269970-228269981 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
19	E2F6	chr1:228269716-228270321	A549	lung:	n/a	chr1:228270281-228270290 chr1:228270206-228270215 chr1:228270312-228270321
20	POLR2A	chr1:228269908-228270854	U87	brain:	n/a	n/a
21	SMARCB1	chr1:228269838-228271805	Hela-S3	cervix:	n/a	n/a
22	CREB1	chr1:228269350-228271910	HepG2	liver:	n/a	chr1:228270390-228270403
23	POLR2A	chr1:228268843-228274035	GM12878	blood:	n/a	n/a
24	POLR2A	chr1:228269847-228270827	MCF-7	breast:	n/a	n/a
25	POLR2A	chr1:228269867-228272065	HUVEC	blood vessel:	n/a	n/a
26	POLR2A	chr1:228269089-228271196	Raji	blood:	n/a	n/a
27	POLR2A	chr1:228269858-228270814	MCF-7	breast:	n/a	n/a
28	POLR2A	chr1:228269831-228272124	PFSK-1	brain:	n/a	n/a
29	POLR2A	chr1:228269854-228270786	H1-neurons	neurons:	n/a	n/a
30	MAX	chr1:228269736-228270584	K562	blood:	n/a	chr1:228269763-228269773 chr1:228269970-228269981 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
31	POLR2A	chr1:228269537-228270951	GM10847	blood:	n/a	n/a
32	POLR2A	chr1:228269729-228271211	A549	lung:	n/a	n/a
33	TAF1	chr1:228269757-228270906	MCF-7	breast:	n/a	n/a
34	TCF12	chr1:228269661-228270407	A549	lung:	n/a	chr1:228270289-228270299
35	POLR2A	chr1:228269191-228271920	GM12878	blood:	n/a	n/a
36	HDAC2	chr1:228269807-228270341	K562	blood:	n/a	n/a
37	E2F6	chr1:228269475-228270550	A549	lung:	n/a	chr1:228270281-228270290 chr1:228270206-228270215 chr1:228270312-228270321
38	POLR2A	chr1:228268861-228272292	K562	blood:	n/a	n/a
39	MYC	chr1:228269434-228272362	K562	blood:	n/a	chr1:228271848-228271859 chr1:228269763-228269773 chr1:228269970-228269981 chr1:228271849-228271856 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
40	TAF1	chr1:228269902-228271194	ECC-1	luminal epithelium:	n/a	n/a
41	ELF1	chr1:228269779-228271212	K562	blood:	n/a	chr1:228270382-228270391 chr1:228270805-228270818 chr1:228269836-228269848 chr1:228270761-228270770 chr1:228269866-228269878
42	SIN3AK20	chr1:228269812-228272410	K562	blood:	n/a	n/a
43	PML	chr1:228269838-228270599	MCF-7	breast:	n/a	n/a
44	POLR2A	chr1:228269429-228271869	Hela-S3	cervix:	n/a	n/a
45	MYC	chr1:228269851-228270112	MCF-7	breast:	n/a	chr1:228269970-228269981 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
46	STAT5A	chr1:228269835-228271140	GM12878	blood:	n/a	chr1:228269996-228270004 chr1:228270734-228270746
47	POLR2A	chr1:228269819-228269954	A549	lung:	n/a	n/a
48	POLR2A	chr1:228269080-228271411	K562	blood:	n/a	n/a
49	MYC	chr1:228268849-228272477	K562	blood:	n/a	chr1:228271848-228271859 chr1:228269763-228269773 chr1:228269970-228269981 chr1:228271849-228271856 chr1:228270033-228270043 chr1:228269015-228269031 chr1:228269970-228269980 chr1:228269972-228269979 chr1:228269039-228269048
50	SIN3AK20	chr1:228269692-228271096	MCF-7	breast:	n/a	n/a

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr1:228269915-228269965	MCF-7	breast:	n/a
2	chr1:228269915-228269965	PFSK-1	brain:	n/a
3	chr1:228269915-228269965	H1-hESC	embryonic stem cell:	embryo
4	chr1:228269881-228269931	AG10803	skin:	n/a
5	chr1:228269881-228269931	HL-60	blood:	n/a
6	chr1:228269881-228269931	CMK	blood:	n/a
7	chr1:228269915-228269965	Hepatocyte	liver:	n/a
8	chr1:228269915-228269965	A549	lung:	n/a
9	chr1:228269915-228269965	T-47D	breast:	n/a
10	chr1:228269881-228269931	Hepatocyte	liver:	n/a
11	chr1:228269881-228269931	HepG2	liver:	n/a
12	chr1:228269881-228269931	Jurkat	blood:	n/a
13	chr1:228269881-228269931	ProgFib	skin:	n/a
14	chr1:228269881-228269931	NHBE	bronchial:	n/a
15	chr1:228269881-228269931	GM12892	blood:	n/a
16	chr1:228269915-228269965	MCF10A-Er-Src	breast:	n/a
17	chr1:228269881-228269931	HAEpiC	amniotic membrane:	n/a
18	chr1:228269915-228269965	PrEC	prostate:	n/a
19	chr1:228269915-228269965	GM12891	blood:	n/a
20	chr1:228269915-228269965	SK-N-MC	brain:	n/a
21	chr1:228269915-228269965	HRCEpiC	kidney:	n/a
22	chr1:228269915-228269965	GM19239	blood:	n/a
23	chr1:228269881-228269931	AG09319	gingival:	n/a
24	chr1:228269915-228269965	PANC-1	pancreas:	n/a
25	chr1:228269881-228269931	HMEC	breast:	n/a
26	chr1:228269915-228269965	ProgFib	skin:	n/a
27	chr1:228269915-228269965	HEEpiC	esophagus:	n/a
28	chr1:228269915-228269965	AG09309	skin:	n/a
29	chr1:228269881-228269931	NB4	blood:	n/a
30	chr1:228269915-228269965	BE2_C	brain:	n/a
31	chr1:228269881-228269931	AoSMC	blood vessel:	n/a
32	chr1:228269881-228269931	HNPCEpiC	eye:	n/a
33	chr1:228269881-228269931	PANC-1	pancreas:	n/a
34	chr1:228269915-228269965	NB4	blood:	n/a
35	chr1:228269881-228269931	NHDF-neo	bronchial:	n/a
36	chr1:228269915-228269965	NHDF-neo	bronchial:	n/a
37	chr1:228269915-228269965	NHBE	bronchial:	n/a
38	chr1:228269881-228269931	HUVEC	blood vessel:	n/a
39	chr1:228269881-228269931	GM06990	blood:	n/a
40	chr1:228269915-228269965	K562	blood:	n/a
41	chr1:228269881-228269931	SAEC	small airway:	n/a
42	chr1:228269881-228269931	GM12891	blood:	n/a
43	chr1:228269915-228269965	HAEpiC	amniotic membrane:	n/a
44	chr1:228269881-228269931	SK-N-MC	brain:	n/a
45	chr1:228269915-228269965	HepG2	liver:	n/a
46	chr1:228269881-228269931	U87	brain:	n/a
47	chr1:228269881-228269931	HCF	heart:	n/a
48	chr1:228269915-228269965	CMK	blood:	n/a
49	chr1:228269881-228269931	RPTEC	kidney:	n/a
50	chr1:228269881-228269931	HIPEpiC	eye:	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:228269915..228273320-chr1:228326449..228329096,4	K562	blood:
2	chr1:227921488..227923041-chr1:228269667..228272192,2	MCF-7	breast:
3	chr1:228268869..228271597-chr1:228699816..228701498,2	K562	blood:
4	chr1:228267816..228271023-chr1:228334433..228337364,3	K562	blood:
5	chr1:228269292..228271024-chr1:228643891..228647144,3	K562	blood:
6	chr1:228192379..228197446-chr1:228268248..228273367,9	MCF-7	breast:
7	chr1:228269794..228271921-chr1:228327972..228330804,3	MCF-7	breast:
8	chr1:228268335..228271224-chr1:228352172..228356089,4	K562	blood:
9	chr1:228268894..228271778-chr1:228351302..228354925,4	MCF-7	breast:
10	chr1:228269154..228271874-chr1:228360119..228363775,3	K562	blood:
11	chr1:228269773..228272364-chr1:228352112..228354622,6	MCF-7	breast:
12	chr1:228269306..228272326-chr1:228326148..228329488,5	MCF-7	breast:
13	chr1:227923000..227925656-chr1:228268639..228271303,2	MCF-7	breast:
14	chr1:228180647..228182707-chr1:228268126..228270057,2	K562	blood:
15	chr1:228266682..228273620-chr1:228293839..228298603,9	MCF-7	breast:
16	chr1:228267667..228275106-chr1:228326600..228331394,10	K562	blood:

Variant related genes	Relation type
ARF1	TF binding region
ARF1	CpG island
ENSG00000143740	Chromatin interaction
ENSG00000081692	Chromatin interaction
ENSG00000162910	Chromatin interaction
ENSG00000203684	Chromatin interaction
ENSG00000143774	Chromatin interaction
ENSG00000181873	Chromatin interaction
ENSG00000215811	Chromatin interaction
ENSG00000154342	Chromatin interaction
ENSG00000196890	Chromatin interaction
ENSG00000181218	Chromatin interaction

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

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	nsv1010605	chr1:227770415-228332690	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
2	esv32853	chr1:227880116-228806209	Enhancers Genic enhancers Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	nsv427952	chr1:227881664-228308629	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
4	nsv826908	chr1:227895386-228691100	Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	157 gene(s)	inside rSNPs	diseases
5	nsv516409	chr1:228035131-228296745	Enhancers Genic enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv523935	chr1:228038124-228681749	Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	137 gene(s)	inside rSNPs	diseases
7	nsv832803	chr1:228155118-228313681	Transcr. at gene 5' and 3' Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
8	nsv873252	chr1:228174528-228371551	Strong transcription Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
9	nsv873253	chr1:228231601-228537942	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
10	nsv873254	chr1:228231601-228543800	Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases
11	nsv873255	chr1:228254753-228684779	Genic enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	133 gene(s)	inside rSNPs	diseases
12	esv3395884	chr1:228269354-228272202	Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	21 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	chr1:228268800-228270000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr1:228269000-228270000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
3	chr1:228269000-228270200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr1:228269000-228270200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
5	chr1:228269000-228271600	Active TSS	HUES64 Cell Line	embryonic stem cell
6	chr1:228269000-228272200	Active TSS	iPS-15b Cell Line	embryonic stem cell
7	chr1:228269200-228270000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
8	chr1:228269200-228270000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
9	chr1:228269200-228270200	Flanking Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr1:228269200-228270200	Flanking Active TSS	Primary B cells from cord blood	blood
11	chr1:228269200-228270200	Flanking Active TSS	Primary hematopoietic stem cells	blood
12	chr1:228269200-228270200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr1:228269200-228271800	Active TSS	H9 Cell Line	embryonic stem cell
14	chr1:228269200-228272000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
15	chr1:228269200-228272000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
16	chr1:228269200-228272200	Active TSS	Right Atrium	heart
17	chr1:228269200-228272400	Active TSS	NHLF	lung
18	chr1:228269400-228271200	Active TSS	Thymus	Thymus
19	chr1:228269400-228271400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr1:228269400-228271400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr1:228269400-228271400	Active TSS	A549	lung
22	chr1:228269400-228271400	Active TSS	GM12878-XiMat	blood
23	chr1:228269400-228271800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr1:228269400-228271800	Active TSS	HUES6 Cell Line	embryonic stem cell
25	chr1:228269400-228271800	Active TSS	iPS-20b Cell Line	embryonic stem cell
26	chr1:228269400-228271800	Active TSS	Fetal Kidney	kidney
27	chr1:228269400-228271800	Active TSS	Pancreatic Islets	Pancreatic Islet
28	chr1:228269400-228272000	Active TSS	HUES48 Cell Line	embryonic stem cell
29	chr1:228269400-228272000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr1:228269400-228272000	Active TSS	NH-A	brain
31	chr1:228269400-228272400	Active TSS	HSMM	muscle
32	chr1:228269400-228272600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr1:228269600-228270000	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr1:228269600-228270000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr1:228269600-228270000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr1:228269600-228270400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr1:228269600-228270400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr1:228269600-228270800	Active TSS	Colonic Mucosa	Colon
39	chr1:228269600-228270800	Active TSS	HMEC	breast
40	chr1:228269600-228271000	Active TSS	Muscle Satellite Cultured Cells	--
41	chr1:228269600-228271000	Active TSS	Fetal Lung	lung
42	chr1:228269600-228271000	Active TSS	Dnd41	blood
43	chr1:228269600-228271200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
44	chr1:228269600-228271200	Active TSS	Primary B cells from peripheral blood	blood
45	chr1:228269600-228271200	Active TSS	Primary hematopoietic stem cells short term culture	blood
46	chr1:228269600-228271200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
47	chr1:228269600-228271200	Active TSS	Fetal Stomach	stomach
48	chr1:228269600-228271400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
49	chr1:228269600-228271400	Active TSS	Primary T helper cells PMA-I stimulated	--
50	chr1:228269600-228271400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood

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