Variant report

Variant	rs11793324
Chromosome Location	chr9:96713690-96713691
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:19)
CpG islands
(count:61)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:19 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:96713310-96713838	MCF-7	breast:	n/a	n/a
2	SUZ12	chr9:96709708-96717433	H1-hESC	embryonic stem cell:	n/a	n/a
3	MYC	chr9:96712976-96714057	NB4	blood:	n/a	n/a
4	GABPA	chr9:96713258-96713902	MCF-7	breast:	n/a	chr9:96713831-96713838
5	ELF1	chr9:96713369-96713708	GM12878	blood:	n/a	n/a
6	CTBP2	chr9:96710652-96717425	H1-hESC	embryonic stem cell:	n/a	n/a
7	BACH1	chr9:96713680-96713724	H1-hESC	embryonic stem cell:	n/a	n/a
8	NR2F2	chr9:96713340-96713923	MCF-7	breast:	n/a	n/a
9	ELF1	chr9:96713025-96713967	MCF-7	breast:	n/a	chr9:96713327-96713336
10	MYC	chr9:96713626-96713749	MCF-7	breast:	n/a	n/a
11	POLR2A	chr9:96713166-96714239	NB4	blood:	n/a	n/a
12	MAX	chr9:96712975-96713977	MCF-7	breast:	n/a	n/a
13	TBP	chr9:96713393-96713834	H1-hESC	embryonic stem cell:	n/a	n/a
14	E2F6	chr9:96713286-96713882	H1-hESC	embryonic stem cell:	n/a	chr9:96713322-96713332
15	GABPA	chr9:96713130-96713922	MCF-7	breast:	n/a	chr9:96713831-96713838
16	MAX	chr9:96713024-96713974	NB4	blood:	n/a	n/a
17	GABPA	chr9:96713323-96713754	H1-hESC	embryonic stem cell:	n/a	n/a
18	POLR2A	chr9:96713127-96713862	MCF-7	breast:	n/a	n/a
19	POLR2A	chr9:96711482-96713707	Hela-S3	cervix:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr9:96713643-96713693	HAEpiC	amniotic membrane:	n/a
2	chr9:96713643-96713693	ECC-1	luminal epithelium:	n/a
3	chr9:96713643-96713693	IMR90	lung:	fetal
4	chr9:96713643-96713693	HNPCEpiC	eye:	n/a
5	chr9:96713643-96713693	GM19239	blood:	n/a
6	chr9:96713643-96713693	RPTEC	kidney:	n/a
7	chr9:96713643-96713693	MCF10A-Er-Src	breast:	n/a
8	chr9:96713643-96713693	T-47D	breast:	n/a
9	chr9:96713643-96713693	HRCEpiC	kidney:	n/a
10	chr9:96713643-96713693	SKMC	muscle:	n/a
11	chr9:96713643-96713693	SK-N-MC	brain:	n/a
12	chr9:96713643-96713693	NB4	blood:	n/a
13	chr9:96713643-96713693	K562	blood:	n/a
14	chr9:96713643-96713693	AoSMC	blood vessel:	n/a
15	chr9:96713643-96713693	GM12891	blood:	n/a
16	chr9:96713643-96713693	HCT-116	colon:	n/a
17	chr9:96713643-96713693	Caco-2	colon:	n/a
18	chr9:96713643-96713693	HRE	kidney:	n/a
19	chr9:96713643-96713693	NHBE	bronchial:	n/a
20	chr9:96713643-96713693	U87	brain:	n/a
21	chr9:96713643-96713693	HEEpiC	esophagus:	n/a
22	chr9:96713643-96713693	AG09309	skin:	n/a
23	chr9:96713643-96713693	LNCaP	prostate:	n/a
24	chr9:96713643-96713693	GM12878	blood:	n/a
25	chr9:96713643-96713693	HUVEC	blood vessel:	n/a
26	chr9:96713643-96713693	SK-N-SH_RA	brain:	n/a
27	chr9:96713643-96713693	ProgFib	skin:	n/a
28	chr9:96713643-96713693	BJ	skin:	n/a
29	chr9:96713643-96713693	PANC-1	pancreas:	n/a
30	chr9:96713643-96713693	Hela-S3	cervix:	n/a
31	chr9:96713643-96713693	NT2-D1	testis:	n/a
32	chr9:96713643-96713693	CMK	blood:	n/a
33	chr9:96713643-96713693	ovcar-3	ovarian:	n/a
34	chr9:96713643-96713693	HIPEpiC	eye:	n/a
35	chr9:96713643-96713693	H1-hESC	embryonic stem cell:	embryo
36	chr9:96713643-96713693	SAEC	small airway:	n/a
37	chr9:96713643-96713693	HMEC	breast:	n/a
38	chr9:96713643-96713693	HCPEpiC	choroid plexus:	n/a
39	chr9:96713643-96713693	Hepatocyte	liver:	n/a
40	chr9:96713643-96713693	AG10803	skin:	n/a
41	chr9:96713643-96713693	HCM	heart:	n/a
42	chr9:96713643-96713693	BE2_C	brain:	n/a
43	chr9:96713643-96713693	NH-A	brain:	n/a
44	chr9:96713643-96713693	HepG2	liver:	n/a
45	chr9:96713643-96713693	AG04449	skin:	fetal
46	chr9:96713643-96713693	AG04450	lung:	fetal
47	chr9:96713643-96713693	SK-N-SH	brain:	n/a
48	chr9:96713643-96713693	PFSK-1	brain:	n/a
49	chr9:96713643-96713693	Jurkat	blood:	n/a
50	chr9:96713643-96713693	HRPEpiC	eye:	n/a

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:96710015..96712729-chr9:96712737..96714256,2	MCF-7	breast:
2	chr9:96711387..96714258-chr9:96716250..96718266,3	K562	blood:
3	chr9:96706258..96707958-chr9:96711820..96714339,2	MCF-7	breast:
4	chr9:96443001..96444886-chr9:96710905..96713769,2	MCF-7	breast:
5	chr9:96713619..96716485-chr9:96717370..96719166,2	K562	blood:
6	chr9:96710465..96712948-chr9:96713592..96715312,2	MCF-7	breast:
7	chr9:96709646..96715968-chr9:96715980..96721050,10	MCF-7	breast:
8	chr9:96664499..96666537-chr9:96711318..96713769,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000235601	TF binding region
ENSG00000235601	CpG island
ENSG00000131668	Chromatin interaction
ENSG00000235601	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10114421	0.90[EUR][1000 genomes]
rs10114811	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs10116489	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10116746	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10122071	0.87[EUR][1000 genomes]
rs10761314	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10821272	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821276	1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[TSI][hapmap];0.97[EUR][1000 genomes]
rs10821281	1.00[CEU][hapmap]
rs10821283	1.00[CEU][hapmap]
rs10821289	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10993003	1.00[EUR][1000 genomes]
rs10993009	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10993028	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10993030	0.89[EUR][1000 genomes]
rs10993032	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs10993035	0.90[EUR][1000 genomes]
rs10993039	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs10993044	0.87[EUR][1000 genomes]
rs10993057	1.00[CEU][hapmap];0.93[CHB][hapmap]
rs11795301	0.90[EUR][1000 genomes]
rs12340234	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs1317246	0.94[EUR][1000 genomes]
rs1933670	0.96[EUR][1000 genomes]
rs1963282	0.92[EUR][1000 genomes]
rs2211361	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs4743942	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs57094654	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58496597	0.94[ASN][1000 genomes]
rs7020044	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs7045483	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs7859394	0.93[EUR][1000 genomes]
rs7866395	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893589	chr9:96624645-96884544	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv824993	chr9:96699362-96725105	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv893590	chr9:96701287-96729129	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96710600-96713800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
2	chr9:96711600-96715600	Bivalent Enhancer	Primary hematopoietic stem cells	blood
3	chr9:96712600-96714000	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
4	chr9:96712800-96713800	Flanking Bivalent TSS/Enh	Primary T cells from cord blood	blood
5	chr9:96712800-96714800	Bivalent/Poised TSS	HSMM	muscle
6	chr9:96713000-96713800	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
7	chr9:96713000-96713800	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
8	chr9:96713000-96713800	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:96713000-96713800	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
10	chr9:96713000-96713800	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
11	chr9:96713000-96713800	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
12	chr9:96713000-96713800	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum
13	chr9:96713000-96713800	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
14	chr9:96713000-96714200	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
15	chr9:96713000-96714400	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose
16	chr9:96713000-96714400	Flanking Bivalent TSS/Enh	Monocytes-CD14+_RO01746	blood
17	chr9:96713000-96714600	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
18	chr9:96713000-96714800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
19	chr9:96713000-96715800	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
20	chr9:96713000-96717000	Transcr. at gene 5' and 3'	Stomach Smooth Muscle	stomach
21	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr9:96713200-96713800	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr9:96713200-96713800	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr9:96713200-96713800	Bivalent/Poised TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Primary B cells from cord blood	blood
28	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Primary B cells from peripheral blood	blood
29	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Primary T helper memory cells from peripheral blood 2	blood
30	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Primary T helper memory cells from peripheral blood 1	blood
31	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Primary Natural Killer cells fromperipheralblood	blood
32	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Primary T killer naive cells fromperipheralblood	blood
33	chr9:96713200-96713800	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr9:96713200-96713800	Bivalent/Poised TSS	Aorta	Aorta
38	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Liver	Liver
39	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
40	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Brain Dorsolateral Prefrontal Cortex	brain
41	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
42	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
43	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
44	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Placenta	Placenta
45	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Left Ventricle	heart
46	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
47	chr9:96713200-96713800	Bivalent/Poised TSS	Small Intestine	intestine
48	chr9:96713200-96713800	Flanking Bivalent TSS/Enh	HMEC	breast
49	chr9:96713200-96713800	Bivalent/Poised TSS	NHDF-Ad	bronchial
50	chr9:96713200-96714000	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links