Variant report

Variant	rs743687
Chromosome Location	chr1:153515525-153515526
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:20)
CpG islands
(count:61)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:20 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:153514448-153518753	Hela-S3	cervix:	n/a	n/a
2	BCL3	chr1:153515124-153515815	A549	lung:	n/a	n/a
3	POLR2A	chr1:153514605-153516221	Hela-S3	cervix:	n/a	n/a
4	POLR2A	chr1:153514648-153515564	PANC-1	pancreas:	n/a	n/a
5	JUND	chr1:153515284-153516037	A549	lung:	n/a	chr1:153515949-153515959
6	TCF12	chr1:153515103-153516025	A549	lung:	n/a	n/a
7	POLR2A	chr1:153514714-153515843	HCT-116	colon:	n/a	n/a
8	POLR2A	chr1:153514113-153518626	PANC-1	pancreas:	n/a	n/a
9	RCOR1	chr1:153515391-153515543	K562	blood:	n/a	n/a
10	POLR2A	chr1:153515430-153515690	A549	lung:	n/a	n/a
11	POLR2A	chr1:153514587-153515773	ProgFib	skin:	n/a	n/a
12	POLR2A	chr1:153513864-153516280	A549	lung:	n/a	n/a
13	POLR2A	chr1:153515407-153515690	A549	lung:	n/a	n/a
14	PBX3	chr1:153514254-153515663	A549	lung:	n/a	n/a
15	POLR2A	chr1:153515421-153516001	A549	lung:	n/a	n/a
16	POLR2A	chr1:153514812-153516091	Hela-S3	cervix:	n/a	n/a
17	POLR2A	chr1:153515289-153515688	A549	lung:	n/a	n/a
18	PBX3	chr1:153514621-153515529	A549	lung:	n/a	n/a
19	POLR2A	chr1:153515023-153515802	Hela-S3	cervix:	n/a	n/a
20	POLR2A	chr1:153515274-153515578	HCT-116	colon:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr1:153515502-153515552	HMEC	breast:	n/a
2	chr1:153515502-153515552	U87	brain:	n/a
3	chr1:153515502-153515552	AG10803	skin:	n/a
4	chr1:153515502-153515552	HCF	heart:	n/a
5	chr1:153515502-153515552	HIPEpiC	eye:	n/a
6	chr1:153515502-153515552	HCT-116	colon:	n/a
7	chr1:153515502-153515552	BJ	skin:	n/a
8	chr1:153515502-153515552	NHBE	bronchial:	n/a
9	chr1:153515502-153515552	HUVEC	blood vessel:	n/a
10	chr1:153515502-153515552	AoSMC	blood vessel:	n/a
11	chr1:153515502-153515552	HepG2	liver:	n/a
12	chr1:153515502-153515552	HEK293	kidney:	embryo
13	chr1:153515502-153515552	GM19239	blood:	n/a
14	chr1:153515502-153515552	AG04449	skin:	fetal
15	chr1:153515502-153515552	PrEC	prostate:	n/a
16	chr1:153515502-153515552	K562	blood:	n/a
17	chr1:153515502-153515552	GM12892	blood:	n/a
18	chr1:153515502-153515552	SK-N-MC	brain:	n/a
19	chr1:153515502-153515552	HRPEpiC	eye:	n/a
20	chr1:153515502-153515552	T-47D	breast:	n/a
21	chr1:153515502-153515552	Jurkat	blood:	n/a
22	chr1:153515502-153515552	BE2_C	brain:	n/a
23	chr1:153515502-153515552	H1-hESC	embryonic stem cell:	embryo
24	chr1:153515502-153515552	SK-N-SH_RA	brain:	n/a
25	chr1:153515502-153515552	CMK	blood:	n/a
26	chr1:153515502-153515552	HCM	heart:	n/a
27	chr1:153515502-153515552	HL-60	blood:	n/a
28	chr1:153515502-153515552	IMR90	lung:	fetal
29	chr1:153515502-153515552	PFSK-1	brain:	n/a
30	chr1:153515502-153515552	HRE	kidney:	n/a
31	chr1:153515502-153515552	HCPEpiC	choroid plexus:	n/a
32	chr1:153515502-153515552	HAEpiC	amniotic membrane:	n/a
33	chr1:153515502-153515552	AG09309	skin:	n/a
34	chr1:153515502-153515552	PANC-1	pancreas:	n/a
35	chr1:153515502-153515552	GM12891	blood:	n/a
36	chr1:153515502-153515552	Caco-2	colon:	n/a
37	chr1:153515502-153515552	NB4	blood:	n/a
38	chr1:153515502-153515552	HEEpiC	esophagus:	n/a
39	chr1:153515502-153515552	ProgFib	skin:	n/a
40	chr1:153515502-153515552	HRCEpiC	kidney:	n/a
41	chr1:153515502-153515552	Hepatocyte	liver:	n/a
42	chr1:153515502-153515552	LNCaP	prostate:	n/a
43	chr1:153515502-153515552	GM06990	blood:	n/a
44	chr1:153515502-153515552	MCF-7	breast:	n/a
45	chr1:153515502-153515552	A549	lung:	n/a
46	chr1:153515502-153515552	AG04450	lung:	fetal
47	chr1:153515502-153515552	HNPCEpiC	eye:	n/a
48	chr1:153515502-153515552	ECC-1	luminal epithelium:	n/a
49	chr1:153515502-153515552	SAEC	small airway:	n/a
50	chr1:153515502-153515552	MCF10A-Er-Src	breast:	n/a

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:153514799..153517187-chr1:153642186..153644842,2	MCF-7	breast:
2	chr1:153507264..153509795-chr1:153514317..153516048,2	K562	blood:
3	chr1:153515275..153518447-chr1:153598676..153601896,4	MCF-7	breast:
4	chr1:153514692..153517082-chr1:153605363..153608061,2	MCF-7	breast:
5	chr1:153514173..153516527-chr1:153537925..153539864,2	K562	blood:
6	chr1:153513630..153516548-chr17:59476541..59478695,2	MCF-7	breast:
7	chr1:153515310..153522123-chr1:153537390..153541283,13	MCF-7	breast:

No data

Variant related genes	Relation type
S100A5	TF binding region
S100A5	CpG island
ENSG00000267131	Chromatin interaction
ENSG00000196754	Chromatin interaction
ENSG00000160678	Chromatin interaction
ENSG00000143621	Chromatin interaction
ENSG00000272030	Chromatin interaction
ENSG00000121068	Chromatin interaction
ENSG00000189171	Chromatin interaction
ENSG00000197956	Chromatin interaction
ENSG00000160679	Chromatin interaction
ENSG00000267280	Chromatin interaction
ENSG00000271853	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1050923	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11488669	0.84[EUR][1000 genomes]
rs1810765	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28452456	0.82[EUR][1000 genomes]
rs28548347	0.82[EUR][1000 genomes]
rs28594230	0.84[EUR][1000 genomes]
rs28718953	0.82[EUR][1000 genomes]
rs36022742	0.82[EUR][1000 genomes]
rs3762268	0.82[EUR][1000 genomes]
rs41265162	0.82[EUR][1000 genomes]
rs41265164	0.82[EUR][1000 genomes]
rs4595398	0.82[EUR][1000 genomes]
rs55955983	0.82[EUR][1000 genomes]
rs56043239	0.82[EUR][1000 genomes]
rs56089062	0.82[EUR][1000 genomes]
rs56350425	0.82[EUR][1000 genomes]
rs56838169	0.82[EUR][1000 genomes]
rs57024596	0.82[EUR][1000 genomes]
rs58072118	0.82[EUR][1000 genomes]
rs59376279	0.82[EUR][1000 genomes]
rs60218214	0.82[EUR][1000 genomes]
rs61265945	0.82[EUR][1000 genomes]
rs6427301	0.82[EUR][1000 genomes]
rs73026350	0.82[EUR][1000 genomes]
rs7535476	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010488	chr1:152901263-153670972	Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
2	nsv535171	chr1:152901263-153670972	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
3	nsv1002705	chr1:153307852-153525589	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
4	nsv831603	chr1:153405842-153576143	Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	148 gene(s)	inside rSNPs	diseases
5	nsv1007306	chr1:153413827-153541798	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	146 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:153509200-153515600	Weak transcription	Fetal Kidney	kidney
2	chr1:153509200-153516800	Enhancers	Fetal Thymus	thymus
3	chr1:153509200-153517400	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr1:153509400-153516800	Weak transcription	Right Atrium	heart
5	chr1:153509400-153517000	Weak transcription	HUVEC	blood vessel
6	chr1:153509400-153527600	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr1:153509600-153515600	Weak transcription	Fetal Stomach	stomach
8	chr1:153509600-153517000	Weak transcription	Brain Hippocampus Middle	brain
9	chr1:153509800-153515800	Weak transcription	Fetal Heart	heart
10	chr1:153509800-153515800	Weak transcription	Right Ventricle	heart
11	chr1:153511200-153516200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr1:153511200-153516800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr1:153511200-153516800	Weak transcription	Pancreas	Pancrea
14	chr1:153511400-153516800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr1:153511400-153516800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr1:153511400-153517000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr1:153511400-153517200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr1:153511800-153516400	Enhancers	K562	blood
19	chr1:153512000-153515600	Enhancers	HSMM	muscle
20	chr1:153512000-153517000	Enhancers	Dnd41	blood
21	chr1:153512200-153517200	Enhancers	Thymus	Thymus
22	chr1:153512400-153515600	Enhancers	Muscle Satellite Cultured Cells	--
23	chr1:153512400-153515600	Enhancers	Placenta Amnion	Placenta Amnion
24	chr1:153512400-153522400	Enhancers	Stomach Mucosa	stomach
25	chr1:153512600-153515600	Enhancers	Stomach Smooth Muscle	stomach
26	chr1:153512600-153515800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr1:153512800-153516800	Enhancers	Esophagus	oesophagus
28	chr1:153512800-153517000	Enhancers	Placenta	Placenta
29	chr1:153513400-153516800	Weak transcription	Fetal Intestine Large	intestine
30	chr1:153513400-153516800	Weak transcription	Fetal Intestine Small	intestine
31	chr1:153513600-153516400	Enhancers	Duodenum Smooth Muscle	Duodenum
32	chr1:153513800-153515600	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr1:153513800-153516000	Weak transcription	NHLF	lung
34	chr1:153513800-153516400	Weak transcription	Small Intestine	intestine
35	chr1:153513800-153516800	Enhancers	Primary B cells from cord blood	blood
36	chr1:153513800-153516800	Weak transcription	NH-A	brain
37	chr1:153514000-153515600	Weak transcription	HMEC	breast
38	chr1:153514000-153515800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
39	chr1:153514000-153516000	Enhancers	Primary T helper naive cells from peripheral blood	blood
40	chr1:153514000-153516200	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr1:153514000-153516400	Weak transcription	Colonic Mucosa	Colon
42	chr1:153514000-153516800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr1:153514000-153516800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
44	chr1:153514000-153516800	Weak transcription	Gastric	stomach
45	chr1:153514000-153517200	Weak transcription	GM12878-XiMat	blood
46	chr1:153514200-153515800	Enhancers	ES-I3 Cell Line	embryonic stem cell
47	chr1:153514200-153516000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
48	chr1:153514200-153516800	Enhancers	Skeletal Muscle Male	skeletal muscle
49	chr1:153514400-153516800	Genic enhancers	Fetal Muscle Leg	muscle
50	chr1:153514400-153517000	Enhancers	HepG2	liver

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