Variant report

Variant	rs4509254
Chromosome Location	chr7:97836764-97836765
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	ZNF263	chr7:97836633-97836959	HEK293-T-REx	kidney:	n/a	n/a

Variant related genes	Relation type
BHLHA15	TF binding region

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

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10280984	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12704968	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1464739	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1880303	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1969007	1.00[EUR][1000 genomes]
rs1983439	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2088171	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2172885	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4318996	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4727387	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4729411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4729433	1.00[AMR][1000 genomes]
rs6465652	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6465656	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6465659	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6943900	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6943971	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6945999	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6948785	1.00[YRI][hapmap]
rs6956383	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6970100	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6971967	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6975661	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406084	1.00[AMR][1000 genomes]
rs73709070	1.00[EUR][1000 genomes]
rs7788829	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7792787	1.00[EUR][1000 genomes]
rs7800032	1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7804326	1.00[AMR][1000 genomes]
rs7805804	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs847561	1.00[EUR][1000 genomes]
rs865337	1.00[EUR][1000 genomes]
rs903593	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs982466	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031371	chr7:97312452-98070538	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv3500384	chr7:97527787-98015382	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
3	esv3500386	chr7:97527787-98015382	Bivalent Enhancer Flanking Active TSS Strong transcription Enhancers Genic enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
4	nsv1017481	chr7:97597641-98041043	Active TSS Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
5	nsv539031	chr7:97597641-98041043	Strong transcription Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
6	nsv1019531	chr7:97653880-98034129	Weak transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv539032	chr7:97653880-98034129	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
8	esv1816676	chr7:97676259-97868033	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv831066	chr7:97726879-97890550	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
10	nsv1033029	chr7:97773232-98017992	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
11	nsv539033	chr7:97773232-98017992	Genic enhancers Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
12	nsv888760	chr7:97816327-97965016	Weak transcription Bivalent/Poised TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
13	nsv888761	chr7:97829492-97844578	Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
14	nsv888762	chr7:97829492-97853184	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer 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	5 gene(s)	inside rSNPs	diseases
15	nsv888763	chr7:97829492-97866291	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
16	nsv888764	chr7:97832628-97844578	Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
17	nsv888765	chr7:97834386-97853184	Bivalent Enhancer Enhancers Strong transcription Active TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:97765800-97840800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr7:97782400-97839800	Weak transcription	Fetal Brain Male	brain
3	chr7:97793400-97841000	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr7:97808600-97839800	Weak transcription	Right Atrium	heart
5	chr7:97812000-97841000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr7:97816000-97839200	Weak transcription	Psoas Muscle	Psoas
7	chr7:97816600-97839800	Weak transcription	NH-A	brain
8	chr7:97822400-97841000	Weak transcription	K562	blood
9	chr7:97822800-97837600	Weak transcription	Fetal Kidney	kidney
10	chr7:97823000-97851000	Weak transcription	HSMMtube	muscle
11	chr7:97823800-97840000	Weak transcription	Small Intestine	intestine
12	chr7:97824400-97839800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr7:97824600-97839800	Weak transcription	Osteobl	bone
14	chr7:97824600-97840800	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr7:97824800-97839800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr7:97824800-97839800	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr7:97824800-97840000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr7:97825200-97851000	Weak transcription	Fetal Lung	lung
19	chr7:97831600-97839200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr7:97831800-97837400	Strong transcription	Sigmoid Colon	Sigmoid Colon
21	chr7:97832000-97836800	Strong transcription	Fetal Muscle Trunk	muscle
22	chr7:97832000-97837400	Strong transcription	Fetal Stomach	stomach
23	chr7:97832000-97837800	Weak transcription	NHEK	skin
24	chr7:97832200-97836800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr7:97832200-97836800	Strong transcription	Stomach Smooth Muscle	stomach
26	chr7:97832200-97837600	Strong transcription	Liver	Liver
27	chr7:97832200-97837800	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr7:97832200-97839200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr7:97832200-97839600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr7:97832200-97839600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr7:97832200-97840600	Weak transcription	HMEC	breast
32	chr7:97832400-97836800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
33	chr7:97832400-97836800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr7:97832400-97837200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr7:97832400-97837200	Strong transcription	Lung	lung
36	chr7:97832400-97839200	Strong transcription	Primary neutrophils fromperipheralblood	blood
37	chr7:97832600-97836800	Strong transcription	HUES6 Cell Line	embryonic stem cell
38	chr7:97832600-97836800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr7:97832600-97836800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr7:97832600-97836800	Strong transcription	Brain Germinal Matrix	brain
41	chr7:97832600-97836800	Strong transcription	Skeletal Muscle Male	skeletal muscle
42	chr7:97832600-97837000	Strong transcription	Duodenum Smooth Muscle	Duodenum
43	chr7:97832800-97836800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr7:97832800-97836800	Strong transcription	Fetal Brain Female	brain
45	chr7:97832800-97837000	Strong transcription	Placenta	Placenta
46	chr7:97832800-97837000	Strong transcription	Monocytes-CD14+_RO01746	blood
47	chr7:97832800-97837200	Strong transcription	Primary monocytes fromperipheralblood	blood
48	chr7:97832800-97837200	Strong transcription	Rectal Mucosa Donor 29	rectum
49	chr7:97833000-97836800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr7:97833000-97836800	Strong transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links