Variant report

Variant	rs6797924
Chromosome Location	chr3:156434251-156434252
allele	A/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	POLR2A	chr3:156433389-156435640	A549	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:156433055..156435190-chr3:156533377..156535196,2	MCF-7	breast:
2	chr3:156433421..156435985-chr3:156439013..156440942,2	K562	blood:

Variant related genes	Relation type
METTL15P1	TF binding region
ENSG00000240875	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs13323819	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1397191	0.89[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16826731	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1991618	0.85[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[AMR][1000 genomes]
rs28695987	1.00[AMR][1000 genomes]
rs4474996	1.00[MEX][hapmap]
rs56234943	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57472927	1.00[AMR][1000 genomes]
rs60659904	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61607068	1.00[AMR][1000 genomes]
rs6763606	1.00[AMR][1000 genomes]
rs6779040	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873709	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73873711	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7609776	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7610539	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7610749	1.00[AMR][1000 genomes]
rs7620352	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7620432	0.93[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.94[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7651446	0.86[LWK][hapmap];0.96[MKK][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes]
rs9811311	1.00[MEX][hapmap]
rs9814160	1.00[AMR][1000 genomes]
rs9829961	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9834930	0.81[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9835232	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9837209	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9841118	1.00[AMR][1000 genomes]
rs9853712	1.00[AMR][1000 genomes]
rs9855517	1.00[AMR][1000 genomes]
rs9866769	1.00[AMR][1000 genomes]
rs9870674	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9873467	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9873640	1.00[AMR][1000 genomes]
rs9883215	1.00[MEX][hapmap]
rs9883478	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428745	chr3:156405054-156577840	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156394000-156436000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:156395600-156438600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:156396600-156441000	Weak transcription	Lung	lung
4	chr3:156416000-156437000	Weak transcription	Pancreas	Pancrea
5	chr3:156416000-156443000	Weak transcription	Aorta	Aorta
6	chr3:156422800-156436400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr3:156422800-156436400	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:156422800-156436400	Weak transcription	Placenta	Placenta
9	chr3:156422800-156437600	Weak transcription	Thymus	Thymus
10	chr3:156422800-156438600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr3:156422800-156442800	Weak transcription	Psoas Muscle	Psoas
12	chr3:156423000-156436000	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:156423000-156443200	Weak transcription	Small Intestine	intestine
14	chr3:156423000-156445800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr3:156424000-156440800	Weak transcription	NHLF	lung
16	chr3:156424200-156436600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr3:156424200-156443000	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr3:156424200-156445800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr3:156424400-156434600	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr3:156424400-156435000	Weak transcription	Skeletal Muscle Male	skeletal muscle
21	chr3:156424400-156436600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr3:156424400-156436600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr3:156424400-156438400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:156424400-156438400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr3:156424400-156438600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:156424400-156438600	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr3:156424400-156438600	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr3:156424800-156438400	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr3:156425400-156434800	Weak transcription	Adipose Nuclei	Adipose
30	chr3:156425600-156435000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr3:156426000-156435000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr3:156426600-156446000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr3:156427400-156434400	Weak transcription	Fetal Thymus	thymus
34	chr3:156427600-156435400	Weak transcription	Primary monocytes fromperipheralblood	blood
35	chr3:156428200-156438400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr3:156428400-156439200	Weak transcription	K562	blood
37	chr3:156428600-156434400	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr3:156428600-156445200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr3:156428800-156438600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
40	chr3:156429000-156434800	Weak transcription	Dnd41	blood
41	chr3:156429000-156435000	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr3:156429000-156435000	Weak transcription	Monocytes-CD14+_RO01746	blood
43	chr3:156429000-156435600	Weak transcription	Liver	Liver
44	chr3:156429000-156436000	Weak transcription	Stomach Mucosa	stomach
45	chr3:156429000-156436200	Weak transcription	Hela-S3	cervix
46	chr3:156429000-156438600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr3:156429000-156443000	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr3:156429200-156434400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr3:156429200-156438400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr3:156429200-156439000	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links