Variant report

Variant	rs710097
Chromosome Location	chr6:106958021-106958022
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:25)
CpG islands
(count:61)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:25 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:106957807-106960924	MCF10A-Er-Src	breast:	n/a	n/a
2	MAX	chr6:106957760-106958927	NB4	blood:	n/a	chr6:106958601-106958611
3	MXI1	chr6:106957694-106959152	SK-N-SH	brain:	n/a	n/a
4	CTBP2	chr6:106957957-106958900	H1-hESC	embryonic stem cell:	n/a	n/a
5	CTCF	chr6:106958000-106958150	HEEpiC	esophagus:	n/a	n/a
6	MYC	chr6:106957919-106958195	MCF10A-Er-Src	breast:	n/a	n/a
7	FOS	chr6:106957901-106958118	MCF10A-Er-Src	breast:	n/a	n/a
8	MYC	chr6:106957750-106958858	NB4	blood:	n/a	chr6:106958601-106958611
9	STAT3	chr6:106957822-106958192	MCF10A-Er-Src	breast:	n/a	chr6:106957966-106957977 chr6:106957968-106957977 chr6:106957967-106957976
10	FOS	chr6:106957929-106958194	MCF10A-Er-Src	breast:	n/a	n/a
11	MYC	chr6:106957904-106958977	MCF10A-Er-Src	breast:	n/a	chr6:106958601-106958611
12	STAT3	chr6:106957818-106958238	MCF10A-Er-Src	breast:	n/a	chr6:106957966-106957977 chr6:106957968-106957977 chr6:106957967-106957976
13	POLR2A	chr6:106958001-106958867	NB4	blood:	n/a	n/a
14	FOS	chr6:106957848-106958116	MCF10A-Er-Src	breast:	n/a	n/a
15	STAT3	chr6:106957828-106958143	MCF10A-Er-Src	breast:	n/a	chr6:106957966-106957977 chr6:106957968-106957977 chr6:106957967-106957976
16	WRNIP1	chr6:106957796-106958033	GM12878	blood:	n/a	n/a
17	E2F4	chr6:106957768-106959295	MCF10A-Er-Src	breast:	n/a	chr6:106958287-106958299
18	POLR2A	chr6:106957874-106958156	MCF10A-Er-Src	breast:	n/a	n/a
19	POLR2A	chr6:106957852-106958993	Raji	blood:	n/a	n/a
20	SPI1	chr6:106957890-106958395	HL-60	blood:	n/a	chr6:106958106-106958119
21	E2F6	chr6:106957992-106958830	H1-hESC	embryonic stem cell:	n/a	chr6:106958287-106958299
22	POLR2A	chr6:106957957-106958978	PANC-1	pancreas:	n/a	n/a
23	STAT3	chr6:106957849-106958134	MCF10A-Er-Src	breast:	n/a	chr6:106957966-106957977 chr6:106957968-106957977 chr6:106957967-106957976
24	POLR2A	chr6:106957864-106958968	HL-60	blood:	n/a	n/a
25	POLR2A	chr6:106957853-106959025	HL-60	blood:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr6:106957995-106958045	BE2_C	brain:	n/a
2	chr6:106957995-106958045	K562	blood:	n/a
3	chr6:106957995-106958045	CMK	blood:	n/a
4	chr6:106957995-106958045	ECC-1	luminal epithelium:	n/a
5	chr6:106957995-106958045	MCF-7	breast:	n/a
6	chr6:106957995-106958045	HEEpiC	esophagus:	n/a
7	chr6:106957995-106958045	HIPEpiC	eye:	n/a
8	chr6:106957995-106958045	PrEC	prostate:	n/a
9	chr6:106957995-106958045	SK-N-SH_RA	brain:	n/a
10	chr6:106957995-106958045	GM06990	blood:	n/a
11	chr6:106957995-106958045	HMEC	breast:	n/a
12	chr6:106957995-106958045	A549	lung:	n/a
13	chr6:106957995-106958045	HCT-116	colon:	n/a
14	chr6:106957995-106958045	Jurkat	blood:	n/a
15	chr6:106957995-106958045	SAEC	small airway:	n/a
16	chr6:106957995-106958045	SKMC	muscle:	n/a
17	chr6:106957995-106958045	NH-A	brain:	n/a
18	chr6:106957995-106958045	PFSK-1	brain:	n/a
19	chr6:106957995-106958045	AoSMC	blood vessel:	n/a
20	chr6:106957995-106958045	NHBE	bronchial:	n/a
21	chr6:106957995-106958045	Hepatocyte	liver:	n/a
22	chr6:106957995-106958045	HCF	heart:	n/a
23	chr6:106957995-106958045	GM19239	blood:	n/a
24	chr6:106957995-106958045	HRE	kidney:	n/a
25	chr6:106957995-106958045	HCPEpiC	choroid plexus:	n/a
26	chr6:106957995-106958045	HepG2	liver:	n/a
27	chr6:106957995-106958045	GM12878	blood:	n/a
28	chr6:106957995-106958045	MCF10A-Er-Src	breast:	n/a
29	chr6:106957995-106958045	T-47D	breast:	n/a
30	chr6:106957995-106958045	HRCEpiC	kidney:	n/a
31	chr6:106957995-106958045	HNPCEpiC	eye:	n/a
32	chr6:106957995-106958045	H1-hESC	embryonic stem cell:	embryo
33	chr6:106957995-106958045	ProgFib	skin:	n/a
34	chr6:106957995-106958045	ovcar-3	ovarian:	n/a
35	chr6:106957995-106958045	HEK293	kidney:	embryo
36	chr6:106957995-106958045	HPAEpiC	pulmonary alveolar:	n/a
37	chr6:106957995-106958045	Hela-S3	cervix:	n/a
38	chr6:106957995-106958045	AG04449	skin:	fetal
39	chr6:106957995-106958045	AG10803	skin:	n/a
40	chr6:106957995-106958045	HUVEC	blood vessel:	n/a
41	chr6:106957995-106958045	AG09309	skin:	n/a
42	chr6:106957995-106958045	U87	brain:	n/a
43	chr6:106957995-106958045	NHDF-neo	bronchial:	n/a
44	chr6:106957995-106958045	GM12892	blood:	n/a
45	chr6:106957995-106958045	LNCaP	prostate:	n/a
46	chr6:106957995-106958045	NB4	blood:	n/a
47	chr6:106957995-106958045	RPTEC	kidney:	n/a
48	chr6:106957995-106958045	SK-N-SH	brain:	n/a
49	chr6:106957995-106958045	PANC-1	pancreas:	n/a
50	chr6:106957995-106958045	IMR90	lung:	fetal

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:106955204..106959628-chr6:106966256..106969365,4	K562	blood:
2	chr6:106957571..106959305-chr6:106960058..106962439,2	MCF-7	breast:
3	chr6:106956358..106959318-chr6:106991274..106994095,2	MCF-7	breast:

No data

Variant related genes	Relation type
AIM1	TF binding region
AIM1	CpG island
ENSG00000112297	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs710096	0.88[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs783404	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs783407	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs783409	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[ASN][1000 genomes]
rs783417	0.91[ASN][1000 genomes]
rs783420	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs783421	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs783422	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs783423	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs936497	0.88[CHB][hapmap]

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	nsv932155	chr6:106281728-107030467	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv532047	chr6:106591482-107143252	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv870375	chr6:106696090-107047892	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
4	nsv1025510	chr6:106791080-106982400	Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv538404	chr6:106791080-106982400	Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:106956800-106959600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
2	chr6:106957000-106959200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
3	chr6:106957000-106962800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr6:106957200-106958800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
5	chr6:106957200-106958800	Weak transcription	Hela-S3	cervix
6	chr6:106957200-106960000	Flanking Active TSS	Primary B cells from cord blood	blood
7	chr6:106957200-106961200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
8	chr6:106957200-106961600	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
9	chr6:106957200-106962800	Flanking Active TSS	Primary hematopoietic stem cells	blood
10	chr6:106957400-106958200	Bivalent Enhancer	Fetal Muscle Leg	muscle
11	chr6:106957400-106958400	Flanking Active TSS	Primary B cells from peripheral blood	blood
12	chr6:106957400-106958800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
13	chr6:106957400-106958800	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
14	chr6:106957400-106958800	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr6:106957400-106959000	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr6:106957400-106959000	Flanking Active TSS	Thymus	Thymus
17	chr6:106957400-106959200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
18	chr6:106957400-106959400	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
19	chr6:106957400-106959800	Flanking Bivalent TSS/Enh	Fetal Thymus	thymus
20	chr6:106957400-106960200	Flanking Active TSS	Adipose Nuclei	Adipose
21	chr6:106957400-106962200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:106957400-106963400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
23	chr6:106957600-106958200	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:106957600-106958200	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
25	chr6:106957600-106958200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:106957600-106958200	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
27	chr6:106957600-106958200	Enhancers	Gastric	stomach
28	chr6:106957600-106958200	Flanking Bivalent TSS/Enh	Dnd41	blood
29	chr6:106957600-106958200	Bivalent/Poised TSS	HepG2	liver
30	chr6:106957600-106958400	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
31	chr6:106957600-106958400	Enhancers	Spleen	Spleen
32	chr6:106957600-106958800	Bivalent/Poised TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr6:106957600-106958800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
34	chr6:106957600-106959000	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:106957600-106959000	Flanking Bivalent TSS/Enh	Fetal Intestine Small	intestine
36	chr6:106957600-106959000	Active TSS	Rectal Smooth Muscle	rectum
37	chr6:106957600-106959000	Flanking Bivalent TSS/Enh	NH-A	brain
38	chr6:106957600-106959600	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
39	chr6:106957600-106959800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
40	chr6:106957600-106961000	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
41	chr6:106957800-106958200	Bivalent Enhancer	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr6:106957800-106958200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
43	chr6:106957800-106958200	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
44	chr6:106957800-106958200	Flanking Bivalent TSS/Enh	Liver	Liver
45	chr6:106957800-106958200	Bivalent/Poised TSS	Colonic Mucosa	Colon
46	chr6:106957800-106958200	Flanking Bivalent TSS/Enh	Fetal Heart	heart
47	chr6:106957800-106958200	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
48	chr6:106957800-106958200	Enhancers	Lung	lung
49	chr6:106957800-106958200	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
50	chr6:106957800-106958200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links