Variant report

Variant	rs35965122
Chromosome Location	chr3:156892777-156892778
allele	C/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	IRF4	chr3:156892387-156893153	GM12878	blood:	n/a	n/a
2	GABPA	chr3:156892467-156893102	Hela-S3	cervix:	n/a	chr3:156892823-156892834 chr3:156892825-156892834 chr3:156892823-156892832 chr3:156892820-156892834 chr3:156892823-156892837 chr3:156892735-156892744
3	BHLHE40	chr3:156892296-156893134	HepG2	liver:	n/a	n/a
4	EP300	chr3:156892170-156893265	K562	blood:	n/a	chr3:156893191-156893200 chr3:156892974-156892983
5	MAX	chr3:156892463-156893037	HUVEC	blood vessel:	n/a	chr3:156892666-156892676
6	USF2	chr3:156892087-156893437	GM12878	blood:	n/a	n/a
7	YY1	chr3:156892249-156893343	GM12892	blood:	n/a	chr3:156892601-156892615 chr3:156892974-156892983
8	JUND	chr3:156892538-156893019	H1-hESC	embryonic stem cell:	n/a	n/a
9	HEY1	chr3:156891630-156893320	K562	blood:	n/a	chr3:156892823-156892838
10	ATF2	chr3:156892269-156893582	GM12878	blood:	n/a	n/a
11	MXI1	chr3:156892463-156894182	Hela-S3	cervix:	n/a	n/a
12	POLR2A	chr3:156892184-156893349	Hela-S3	cervix:	n/a	n/a
13	FOSL2	chr3:156892437-156893165	HepG2	liver:	n/a	n/a
14	EGR1	chr3:156892397-156893126	H1-hESC	embryonic stem cell:	n/a	chr3:156892824-156892833 chr3:156892733-156892747
15	EP300	chr3:156892345-156893419	A549	lung:	n/a	chr3:156893191-156893200 chr3:156892974-156892983
16	GTF3C2	chr3:156891773-156892916	K562	blood:	n/a	n/a
17	YY1	chr3:156892438-156893333	SK-N-SH_RA	brain:	n/a	chr3:156892601-156892615 chr3:156892974-156892983
18	USF1	chr3:156892527-156893028	SK-N-SH_RA	brain:	n/a	n/a
19	POLR2A	chr3:156891834-156893851	Hela-S3	cervix:	n/a	n/a
20	ZBTB33	chr3:156892451-156893294	A549	lung:	n/a	n/a
21	EP300	chr3:156892424-156893178	HepG2	liver:	n/a	chr3:156892974-156892983
22	EP300	chr3:156892248-156893270	SK-N-SH	brain:	n/a	chr3:156893191-156893200 chr3:156892974-156892983
23	BCLAF1	chr3:156892241-156893388	GM12878	blood:	n/a	chr3:156892968-156892977
24	FOXM1	chr3:156892036-156893450	GM12878	blood:	n/a	n/a
25	TBP	chr3:156892082-156893204	H1-hESC	embryonic stem cell:	n/a	n/a
26	STAT1	chr3:156892015-156893281	K562	blood:	n/a	chr3:156892751-156892762 chr3:156892747-156892767 chr3:156892633-156892641 chr3:156892750-156892764
27	EP300	chr3:156892478-156893217	GM12878	blood:	n/a	chr3:156893191-156893200 chr3:156892974-156892983
28	EGR1	chr3:156892494-156893117	ECC-1	luminal epithelium:	n/a	chr3:156892824-156892833 chr3:156892733-156892747
29	REST	chr3:156892281-156893386	HL-60	blood:	n/a	n/a
30	RUNX3	chr3:156892122-156893379	GM12878	blood:	n/a	n/a
31	TAF7	chr3:156892499-156892788	K562	blood:	n/a	n/a
32	MYC	chr3:156892366-156893287	K562	blood:	n/a	chr3:156892666-156892676
33	MEF2A	chr3:156892373-156893230	GM12878	blood:	n/a	n/a
34	POLR2A	chr3:156892029-156893303	HEK293	kidney:	n/a	n/a
35	GATA1	chr3:156891877-156893319	PBDE	blood:	n/a	chr3:156892055-156892065
36	POLR2A	chr3:156892060-156893832	PBDE	blood:	n/a	n/a
37	TBP	chr3:156891891-156893445	K562	blood:	n/a	n/a
38	SMARCB1	chr3:156892055-156893112	Hela-S3	cervix:	n/a	n/a
39	WRNIP1	chr3:156892540-156893369	GM12878	blood:	n/a	n/a
40	NFATC1	chr3:156892083-156893500	GM12878	blood:	n/a	n/a
41	ETS1	chr3:156892420-156893037	K562	blood:	n/a	chr3:156892792-156892801 chr3:156892693-156892704 chr3:156892774-156892785
42	USF2	chr3:156892348-156893273	Hela-S3	cervix:	n/a	n/a
43	THAP1	chr3:156892769-156892964	K562	blood:	n/a	n/a
44	YY1	chr3:156892530-156893232	A549	lung:	n/a	chr3:156892601-156892615 chr3:156892974-156892983
45	SIN3AK20	chr3:156892316-156893438	HCT-116	colon:	n/a	n/a
46	POLR2A	chr3:156891881-156893806	Raji	blood:	n/a	n/a
47	GATA3	chr3:156892436-156893149	T-47D	breast:	n/a	n/a
48	NFATC1	chr3:156892364-156893486	GM12878	blood:	n/a	n/a
49	TBP	chr3:156892104-156893687	GM12878	blood:	n/a	n/a
50	CEBPB	chr3:156892479-156893150	HepG2	liver:	n/a	chr3:156892708-156892719

No.	Distal block	Cell Line	Cell type
1	chr3:156892333..156892985-chrX:135962501..135963144,2	Hela-S3	cervix:
2	chr3:49449505..49450092-chr3:156892357..156893271,2	Hela-S3	cervix:
3	chr3:156891687..156894320-chr3:157219306..157221888,3	MCF-7	breast:
4	chr3:156877271..156878729-chr3:156891908..156893288,13	MCF-7	breast:
5	chr3:156877577..156878787-chr3:156892042..156894243,14	HCT-116	colon:
6	chr3:156271607..156273392-chr3:156891262..156894145,2	K562	blood:
7	chr3:156876658..156879378-chr3:156891661..156893506,34	Hela-S3	cervix:
8	chr3:150481130..150481712-chr3:156892681..156893423,2	Hela-S3	cervix:
9	chr3:156877563..156878528-chr3:156892084..156893407,12	NB4	blood:
10	chr3:156533499..156536526-chr3:156891417..156894235,3	MCF-7	breast:
11	chr17:66243874..66244746-chr3:156892198..156892993,2	Hela-S3	cervix:
12	chr1:150533860..150534737-chr3:156892748..156893606,2	Hela-S3	cervix:
13	chr3:156542698..156545519-chr3:156890354..156893395,4	K562	blood:
14	chr3:156877079..156878844-chr3:156892396..156893424,14	MCF-7	breast:
15	chr3:156877523..156878545-chr3:156892549..156893305,3	K562	blood:
16	chr11:46721576..46722308-chr3:156892604..156893231,2	Hela-S3	cervix:
17	chr3:156892011..156892822-chr6:126307107..126307913,2	Hela-S3	cervix:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LEKR1-4	chr3:156892538-156893297	NONHSAT092905

Variant related genes	Relation type
RNA5SP146	TF binding region
ENSG00000243176	TF binding region
ENSG00000196704	Chromatin interaction
ENSG00000175220	Chromatin interaction
ENSG00000181788	Chromatin interaction
ENSG00000145022	Chromatin interaction
ENSG00000265100	Chromatin interaction
ENSG00000147274	Chromatin interaction
ENSG00000197415	Chromatin interaction
ENSG00000066651	Chromatin interaction
ENSG00000197980	Chromatin interaction
ENSG00000240875	Chromatin interaction
ENSG00000114850	Chromatin interaction
ENSG00000067560	Chromatin interaction
ENSG00000163660	Chromatin interaction
ENSG00000203804	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10513505	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11914788	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11915720	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11917729	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16827306	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16827355	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16827378	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16827392	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2047646	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2049241	1.00[EUR][1000 genomes]
rs2321741	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56810791	1.00[EUR][1000 genomes]
rs56844899	1.00[EUR][1000 genomes]
rs57016273	0.87[AFR][1000 genomes]
rs57897344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57942815	1.00[EUR][1000 genomes]
rs58794040	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59876369	1.00[EUR][1000 genomes]
rs60294797	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61173790	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6762249	1.00[EUR][1000 genomes]
rs6764944	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6769050	0.94[AFR][1000 genomes]
rs6770855	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6771465	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6772599	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6785398	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6793336	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6796862	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6798526	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6798588	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6798689	0.98[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs6810035	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6810106	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73873607	1.00[AMR][1000 genomes]
rs73873609	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73873615	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73873616	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73873625	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73878005	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7618940	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7619015	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7623711	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7625819	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs7630448	1.00[EUR][1000 genomes]
rs7635880	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7645454	1.00[EUR][1000 genomes]
rs7649998	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9756073	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv520331	chr3:156858300-156915650	Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156891600-156893200	Active TSS	Primary T regulatory cells fromperipheralblood	blood
2	chr3:156891800-156893600	Active TSS	Brain Hippocampus Middle	brain
3	chr3:156891800-156893800	Active TSS	HSMMtube	muscle
4	chr3:156891800-156894000	Active TSS	H9 Cell Line	embryonic stem cell
5	chr3:156891800-156894000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:156891800-156894000	Active TSS	Duodenum Smooth Muscle	Duodenum
7	chr3:156891800-156894000	Active TSS	Fetal Brain Female	brain
8	chr3:156891800-156894200	Active TSS	iPS-20b Cell Line	embryonic stem cell
9	chr3:156891800-156894200	Active TSS	Pancreatic Islets	Pancreatic Islet
10	chr3:156891800-156894400	Active TSS	ES-I3 Cell Line	embryonic stem cell
11	chr3:156891800-156894400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
12	chr3:156891800-156894400	Active TSS	HUES48 Cell Line	embryonic stem cell
13	chr3:156891800-156894400	Active TSS	iPS-15b Cell Line	embryonic stem cell
14	chr3:156892000-156892800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr3:156892000-156893600	Active TSS	Primary T cells from cord blood	blood
16	chr3:156892000-156893600	Active TSS	Brain Angular Gyrus	brain
17	chr3:156892000-156893600	Active TSS	Brain Substantia Nigra	brain
18	chr3:156892000-156893800	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
19	chr3:156892000-156893800	Active TSS	Placenta Amnion	Placenta Amnion
20	chr3:156892000-156894000	Active TSS	H1 Cell Line	embryonic stem cell
21	chr3:156892000-156894000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr3:156892000-156894000	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr3:156892000-156894000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
24	chr3:156892000-156894000	Active TSS	Breast Myoepithelial Primary Cells	Breast
25	chr3:156892000-156894000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr3:156892000-156894000	Active TSS	Aorta	Aorta
27	chr3:156892000-156894000	Active TSS	Liver	Liver
28	chr3:156892000-156894000	Active TSS	Colonic Mucosa	Colon
29	chr3:156892000-156894000	Active TSS	Esophagus	oesophagus
30	chr3:156892000-156894000	Active TSS	Fetal Intestine Large	intestine
31	chr3:156892000-156894000	Active TSS	Fetal Lung	lung
32	chr3:156892000-156894000	Active TSS	Left Ventricle	heart
33	chr3:156892000-156894000	Active TSS	Lung	lung
34	chr3:156892000-156894000	Active TSS	Pancreas	Pancrea
35	chr3:156892000-156894000	Active TSS	Psoas Muscle	Psoas
36	chr3:156892000-156894000	Active TSS	Thymus	Thymus
37	chr3:156892000-156894200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr3:156892000-156894200	Active TSS	HUES64 Cell Line	embryonic stem cell
39	chr3:156892000-156894400	Active TSS	Brain Germinal Matrix	brain
40	chr3:156892000-156894400	Active TSS	Right Ventricle	heart
41	chr3:156892200-156893600	Active TSS	Brain Inferior Temporal Lobe	brain
42	chr3:156892200-156893600	Active TSS	Rectal Mucosa Donor 29	rectum
43	chr3:156892200-156893600	Active TSS	Rectal Smooth Muscle	rectum
44	chr3:156892200-156893800	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr3:156892200-156893800	Active TSS	iPS-18 Cell Line	embryonic stem cell
46	chr3:156892200-156893800	Active TSS	Brain Anterior Caudate	brain
47	chr3:156892200-156893800	Active TSS	Fetal Adrenal Gland	Adrenal Gland
48	chr3:156892200-156893800	Active TSS	Fetal Kidney	kidney
49	chr3:156892200-156893800	Active TSS	Gastric	stomach
50	chr3:156892200-156893800	Active TSS	Sigmoid Colon	Sigmoid Colon

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