Variant report

Variant	rs822733
Chromosome Location	chr1:228270268-228270269
allele	C/T
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	CTCF	chr1:228270120-228270270	HEK293	kidney:	n/a	n/a
3	RUNX3	chr1:228269804-228270614	GM12878	blood:	n/a	n/a
4	POLR2A	chr1:228269815-228272522	GM12892	blood:	n/a	n/a
5	HEY1	chr1:228270027-228270607	HepG2	liver:	n/a	chr1:228270374-228270389
6	GTF2F1	chr1:228270003-228270584	K562	blood:	n/a	n/a
7	RCOR1	chr1:228270012-228270529	Hela-S3	cervix:	n/a	n/a
8	MYC	chr1:228269812-228270766	MCF10A-Er-Src	breast:	n/a	chr1:228269970-228269981 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
9	HMGN3	chr1:228269758-228271532	K562	blood:	n/a	n/a
10	POLR2A	chr1:228269908-228270822	U87	brain:	n/a	n/a
11	TAF1	chr1:228269962-228270742	H1-hESC	embryonic stem cell:	n/a	n/a
12	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
13	POLR2A	chr1:228268950-228270812	GM12891	blood:	n/a	n/a
14	THAP1	chr1:228270184-228270479	K562	blood:	n/a	n/a
15	NRF1	chr1:228270004-228270468	K562	blood:	n/a	chr1:228270308-228270322 chr1:228270217-228270228 chr1:228270375-228270384 chr1:228270205-228270216 chr1:228270204-228270215 chr1:228270281-228270290 chr1:228270205-228270219
16	ELK1	chr1:228270090-228270483	GM12878	blood:	n/a	n/a
17	EP300	chr1:228269990-228270593	HepG2	liver:	n/a	chr1:228270254-228270270 chr1:228270164-228270177
18	POLR2A	chr1:228269198-228271877	GM19193	blood:	n/a	n/a
19	SP1	chr1:228270081-228270510	GM12878	blood:	n/a	chr1:228270280-228270294 chr1:228270279-228270291 chr1:228270333-228270344 chr1:228270263-228270272 chr1:228270279-228270290 chr1:228270280-228270289 chr1:228270281-228270290 chr1:228270280-228270290 chr1:228270225-228270238 chr1:228270280-228270290 chr1:228270279-228270291 chr1:228270352-228270364 chr1:228270280-228270289 chr1:228270352-228270363
20	MXI1	chr1:228269786-228272826	IMR90	lung:	n/a	chr1:228269970-228269979
21	SP1	chr1:228269951-228270572	A549	lung:	n/a	chr1:228270280-228270294 chr1:228270279-228270291 chr1:228270333-228270344 chr1:228270263-228270272 chr1:228270279-228270290 chr1:228270280-228270289 chr1:228270281-228270290 chr1:228270280-228270290 chr1:228270225-228270238 chr1:228270280-228270290 chr1:228270279-228270291 chr1:228270352-228270364 chr1:228270280-228270289 chr1:228270352-228270363
22	POLR2A	chr1:228269793-228270676	HCT-116	colon:	n/a	n/a
23	YY1	chr1:228270140-228270863	ECC-1	luminal epithelium:	n/a	chr1:228270281-228270290 chr1:228270413-228270421 chr1:228270415-228270423 chr1:228270279-228270293 chr1:228270412-228270422
24	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
25	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
26	GTF2F1	chr1:228270020-228270616	H1-hESC	embryonic stem cell:	n/a	n/a
27	E2F6	chr1:228268914-228270468	K562	blood:	n/a	chr1:228270281-228270290 chr1:228270206-228270215 chr1:228270312-228270321
28	IRF1	chr1:228270022-228270570	K562	blood:	n/a	chr1:228270350-228270364 chr1:228270277-228270291
29	TAF1	chr1:228269811-228270592	A549	lung:	n/a	n/a
30	CTCF	chr1:228270160-228270310	HUVEC	blood vessel:	n/a	chr1:228270283-228270296
31	TAF1	chr1:228270264-228270585	GM12878	blood:	n/a	n/a
32	MAX	chr1:228269884-228270483	HepG2	liver:	n/a	chr1:228269970-228269981 chr1:228270033-228270043 chr1:228269970-228269980 chr1:228269972-228269979
33	E2F6	chr1:228269716-228270321	A549	lung:	n/a	chr1:228270281-228270290 chr1:228270206-228270215 chr1:228270312-228270321
34	CEBPD	chr1:228269981-228270592	K562	blood:	n/a	n/a
35	POLR2A	chr1:228269908-228270854	U87	brain:	n/a	n/a
36	SMARCB1	chr1:228269838-228271805	Hela-S3	cervix:	n/a	n/a
37	EP300	chr1:228269989-228270518	GM12878	blood:	n/a	chr1:228270254-228270270 chr1:228270164-228270177
38	CREB1	chr1:228269350-228271910	HepG2	liver:	n/a	chr1:228270390-228270403
39	NRF1	chr1:228269936-228270515	GM12878	blood:	n/a	chr1:228270308-228270322 chr1:228270217-228270228 chr1:228270375-228270384 chr1:228270205-228270216 chr1:228270204-228270215 chr1:228270281-228270290 chr1:228270205-228270219
40	REST	chr1:228270138-228270571	HepG2	liver:	n/a	chr1:228270280-228270293
41	POLR2A	chr1:228268843-228274035	GM12878	blood:	n/a	n/a
42	POLR2A	chr1:228269847-228270827	MCF-7	breast:	n/a	n/a
43	CTCF	chr1:228270120-228270270	AG04449	skin:	n/a	n/a
44	POLR2A	chr1:228269867-228272065	HUVEC	blood vessel:	n/a	n/a
45	POLR2A	chr1:228269089-228271196	Raji	blood:	n/a	n/a
46	YY1	chr1:228270054-228270769	H1-hESC	embryonic stem cell:	n/a	chr1:228270281-228270290 chr1:228270413-228270421 chr1:228270415-228270423 chr1:228270279-228270293 chr1:228270412-228270422
47	POLR2A	chr1:228269858-228270814	MCF-7	breast:	n/a	n/a
48	FOS	chr1:228270011-228271057	HUVEC	blood vessel:	n/a	n/a
49	HCFC1	chr1:228269925-228270894	K562	blood:	n/a	n/a
50	POLR2A	chr1:228269831-228272124	PFSK-1	brain:	n/a	n/a

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr1:228270225-228270275	AoSMC	blood vessel:	n/a
2	chr1:228270225-228270275	ECC-1	luminal epithelium:	n/a
3	chr1:228270225-228270275	SK-N-SH	brain:	n/a
4	chr1:228270225-228270275	ovcar-3	ovarian:	n/a
5	chr1:228270225-228270275	BJ	skin:	n/a
6	chr1:228270225-228270275	HAEpiC	amniotic membrane:	n/a
7	chr1:228270225-228270275	Hela-S3	cervix:	n/a
8	chr1:228270225-228270275	AG04449	skin:	fetal
9	chr1:228270225-228270275	HRE	kidney:	n/a
10	chr1:228270225-228270275	HEEpiC	esophagus:	n/a
11	chr1:228270225-228270275	HCM	heart:	n/a
12	chr1:228270225-228270275	HEK293	kidney:	embryo
13	chr1:228270225-228270275	H1-hESC	embryonic stem cell:	embryo
14	chr1:228270225-228270275	MCF10A-Er-Src	breast:	n/a
15	chr1:228270225-228270275	SK-N-SH_RA	brain:	n/a
16	chr1:228270225-228270275	PANC-1	pancreas:	n/a
17	chr1:228270225-228270275	AG10803	skin:	n/a
18	chr1:228270225-228270275	HCF	heart:	n/a
19	chr1:228270225-228270275	SK-N-MC	brain:	n/a
20	chr1:228270225-228270275	HCT-116	colon:	n/a
21	chr1:228270225-228270275	HMEC	breast:	n/a
22	chr1:228270225-228270275	HCPEpiC	choroid plexus:	n/a
23	chr1:228270225-228270275	HRCEpiC	kidney:	n/a
24	chr1:228270225-228270275	GM12878	blood:	n/a
25	chr1:228270225-228270275	A549	lung:	n/a
26	chr1:228270225-228270275	GM12891	blood:	n/a
27	chr1:228270225-228270275	PFSK-1	brain:	n/a
28	chr1:228270225-228270275	MCF-7	breast:	n/a
29	chr1:228270225-228270275	NH-A	brain:	n/a
30	chr1:228270225-228270275	GM19239	blood:	n/a
31	chr1:228270225-228270275	U87	brain:	n/a
32	chr1:228270225-228270275	NHDF-neo	bronchial:	n/a
33	chr1:228270225-228270275	SKMC	muscle:	n/a
34	chr1:228270225-228270275	PrEC	prostate:	n/a
35	chr1:228270225-228270275	NB4	blood:	n/a
36	chr1:228270225-228270275	HL-60	blood:	n/a
37	chr1:228270225-228270275	AG09319	gingival:	n/a
38	chr1:228270225-228270275	BE2_C	brain:	n/a
39	chr1:228270225-228270275	HUVEC	blood vessel:	n/a
40	chr1:228270225-228270275	T-47D	breast:	n/a
41	chr1:228270225-228270275	LNCaP	prostate:	n/a
42	chr1:228270225-228270275	AG04450	lung:	fetal
43	chr1:228270225-228270275	Caco-2	colon:	n/a
44	chr1:228270225-228270275	HRPEpiC	eye:	n/a
45	chr1:228270225-228270275	IMR90	lung:	fetal
46	chr1:228270225-228270275	Jurkat	blood:	n/a
47	chr1:228270225-228270275	CMK	blood:	n/a
48	chr1:228270225-228270275	SAEC	small airway:	n/a
49	chr1:228270225-228270275	HIPEpiC	eye:	n/a
50	chr1:228270225-228270275	NHBE	bronchial:	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	chr1:228270227..228270808-chr1:228296563..228297459,2	NB4	blood:
8	chr1:228269794..228271921-chr1:228327972..228330804,3	MCF-7	breast:
9	chr1:45204980..45205724-chr1:228270199..228270919,2	Hela-S3	cervix:
10	chr1:228268335..228271224-chr1:228352172..228356089,4	K562	blood:
11	chr1:228268894..228271778-chr1:228351302..228354925,4	MCF-7	breast:
12	chr1:228269154..228271874-chr1:228360119..228363775,3	K562	blood:
13	chr1:228269773..228272364-chr1:228352112..228354622,6	MCF-7	breast:
14	chr1:228269306..228272326-chr1:228326148..228329488,5	MCF-7	breast:
15	chr1:228270000..228270810-chr15:75939773..75940581,2	Hela-S3	cervix:
16	chr1:227923000..227925656-chr1:228268639..228271303,2	MCF-7	breast:
17	chr1:228266682..228273620-chr1:228293839..228298603,9	MCF-7	breast:
18	chr1:228270141..228272243-chr1:228325927..228327960,2	MCF-7	breast:
19	chr1:228267667..228275106-chr1:228326600..228331394,10	K562	blood:

Variant related genes	Relation type
ARF1	TF binding region
ARF1	CpG island
ENSG00000142945	Chromatin interaction
ENSG00000181218	Chromatin interaction
ENSG00000181873	Chromatin interaction
ENSG00000215811	Chromatin interaction
ENSG00000162910	Chromatin interaction
ENSG00000143740	Chromatin interaction
ENSG00000196890	Chromatin interaction
ENSG00000203684	Chromatin interaction
ENSG00000173548	Chromatin interaction
ENSG00000154342	Chromatin interaction
ENSG00000143774	Chromatin interaction
ENSG00000081692	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs7523917	0.80[EUR][1000 genomes]
rs822725	0.80[EUR][1000 genomes]
rs822739	0.80[EUR][1000 genomes]
rs822740	0.81[EUR][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	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	chr1:228269000-228271600	Active TSS	HUES64 Cell Line	embryonic stem cell
2	chr1:228269000-228272200	Active TSS	iPS-15b Cell Line	embryonic stem cell
3	chr1:228269200-228271800	Active TSS	H9 Cell Line	embryonic stem cell
4	chr1:228269200-228272000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
5	chr1:228269200-228272000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
6	chr1:228269200-228272200	Active TSS	Right Atrium	heart
7	chr1:228269200-228272400	Active TSS	NHLF	lung
8	chr1:228269400-228271200	Active TSS	Thymus	Thymus
9	chr1:228269400-228271400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr1:228269400-228271400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr1:228269400-228271400	Active TSS	A549	lung
12	chr1:228269400-228271400	Active TSS	GM12878-XiMat	blood
13	chr1:228269400-228271800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr1:228269400-228271800	Active TSS	HUES6 Cell Line	embryonic stem cell
15	chr1:228269400-228271800	Active TSS	iPS-20b Cell Line	embryonic stem cell
16	chr1:228269400-228271800	Active TSS	Fetal Kidney	kidney
17	chr1:228269400-228271800	Active TSS	Pancreatic Islets	Pancreatic Islet
18	chr1:228269400-228272000	Active TSS	HUES48 Cell Line	embryonic stem cell
19	chr1:228269400-228272000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr1:228269400-228272000	Active TSS	NH-A	brain
21	chr1:228269400-228272400	Active TSS	HSMM	muscle
22	chr1:228269400-228272600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr1:228269600-228270400	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:228269600-228270400	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr1:228269600-228270800	Active TSS	Colonic Mucosa	Colon
26	chr1:228269600-228270800	Active TSS	HMEC	breast
27	chr1:228269600-228271000	Active TSS	Muscle Satellite Cultured Cells	--
28	chr1:228269600-228271000	Active TSS	Fetal Lung	lung
29	chr1:228269600-228271000	Active TSS	Dnd41	blood
30	chr1:228269600-228271200	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr1:228269600-228271200	Active TSS	Primary B cells from peripheral blood	blood
32	chr1:228269600-228271200	Active TSS	Primary hematopoietic stem cells short term culture	blood
33	chr1:228269600-228271200	Active TSS	Primary T killer naive cells fromperipheralblood	blood
34	chr1:228269600-228271200	Active TSS	Fetal Stomach	stomach
35	chr1:228269600-228271400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
36	chr1:228269600-228271400	Active TSS	Primary T helper cells PMA-I stimulated	--
37	chr1:228269600-228271400	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr1:228269600-228271400	Active TSS	Brain Cingulate Gyrus	brain
39	chr1:228269600-228271400	Active TSS	Brain Hippocampus Middle	brain
40	chr1:228269600-228271400	Active TSS	Brain Inferior Temporal Lobe	brain
41	chr1:228269600-228271400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
42	chr1:228269600-228271400	Active TSS	Brain Substantia Nigra	brain
43	chr1:228269600-228271400	Active TSS	Fetal Brain Female	brain
44	chr1:228269600-228271400	Active TSS	Fetal Intestine Small	intestine
45	chr1:228269600-228271400	Active TSS	Fetal Thymus	thymus
46	chr1:228269600-228271400	Active TSS	Left Ventricle	heart
47	chr1:228269600-228271400	Active TSS	Rectal Mucosa Donor 31	rectum
48	chr1:228269600-228271400	Active TSS	Right Ventricle	heart
49	chr1:228269600-228271400	Active TSS	K562	blood
50	chr1:228269600-228271400	Active TSS	NHEK	skin

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