Variant report

Variant	rs6783595
Chromosome Location	chr3:156864551-156864552
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:156476830..156479789-chr3:156862694..156865587,2	K562	blood:
2	chr3:156399612..156401929-chr3:156863576..156865457,2	K562	blood:
3	chr3:156542142..156544720-chr3:156863625..156866117,2	K562	blood:
4	chr3:156397092..156399511-chr3:156863031..156865658,2	MCF-7	breast:
5	chr3:156826801..156832803-chr3:156862347..156866322,5	K562	blood:
6	chr3:156541659..156544892-chr3:156863625..156867099,4	K562	blood:
7	chr3:156860100..156862214-chr3:156863800..156865338,3	MCF-7	breast:
8	chr3:156863574..156865783-chr3:156891541..156893341,2	MCF-7	breast:
9	chr3:156706303..156707994-chr3:156863763..156866399,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000163659	Chromatin interaction
ENSG00000222675	Chromatin interaction
ENSG00000239706	Chromatin interaction
ENSG00000197980	Chromatin interaction
ENSG00000243176	Chromatin interaction

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10212545	0.83[EUR][1000 genomes]
rs10451871	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10451916	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1046938	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs10513507	0.92[CEU][hapmap]
rs1060543	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap]
rs11926167	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12629549	0.86[EUR][1000 genomes]
rs12637518	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12696045	0.82[ASN][1000 genomes]
rs13061214	0.96[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.86[YRI][hapmap];0.80[ASN][1000 genomes]
rs13081036	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.80[ASN][1000 genomes]
rs13081038	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13084070	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1392799	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1500925	0.82[ASN][1000 genomes]
rs1587534	0.82[EUR][1000 genomes]
rs1587535	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.80[ASN][1000 genomes]
rs1608127	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.80[ASN][1000 genomes]
rs16827308	0.81[CEU][hapmap]
rs16827350	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2088814	0.85[EUR][1000 genomes]
rs2133952	0.86[EUR][1000 genomes]
rs28384296	0.80[EUR][1000 genomes]
rs35217153	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3749214	0.92[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.83[YRI][hapmap]
rs4368452	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4383468	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4563363	0.87[EUR][1000 genomes]
rs4632503	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4680342	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4680344	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4680346	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4680347	0.83[CEU][hapmap]
rs4680348	0.82[EUR][1000 genomes]
rs6441114	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6441121	0.84[CEU][hapmap];0.87[EUR][1000 genomes]
rs6441122	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6441123	0.91[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.80[ASN][1000 genomes]
rs67196056	0.83[EUR][1000 genomes]
rs6767619	0.91[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6773061	0.82[ASN][1000 genomes]
rs6780831	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6781991	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6789178	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6805114	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6808284	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6808457	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6809003	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809394	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7620178	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7625059	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.86[YRI][hapmap];0.80[ASN][1000 genomes]
rs7636185	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7638194	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7642179	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7647643	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs924517	0.84[CEU][hapmap]
rs9289978	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9289979	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9811195	0.81[ASN][1000 genomes]
rs9827676	0.86[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9831830	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9838724	0.85[EUR][1000 genomes]
rs9848409	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9849168	0.81[ASN][1000 genomes]
rs9858423	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9861469	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9867618	0.84[CEU][hapmap];0.87[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	esv3349885	chr3:156685409-156878910	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	141 gene(s)	inside rSNPs	diseases
2	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv520331	chr3:156858300-156915650	Flanking Active TSS Active TSS Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	139 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156848400-156866000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:156848400-156866000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:156848600-156876600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:156852600-156873400	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr3:156853200-156865400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr3:156853400-156872000	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr3:156855000-156865800	Weak transcription	Aorta	Aorta
8	chr3:156855000-156866000	Weak transcription	Ovary	ovary
9	chr3:156855000-156872000	Weak transcription	Right Atrium	heart
10	chr3:156855400-156865400	Weak transcription	Fetal Brain Male	brain
11	chr3:156855400-156865800	Weak transcription	Colonic Mucosa	Colon
12	chr3:156855400-156866000	Weak transcription	Fetal Heart	heart
13	chr3:156855400-156877000	Weak transcription	Gastric	stomach
14	chr3:156855600-156865400	Weak transcription	HepG2	liver
15	chr3:156855600-156865800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr3:156855600-156865800	Weak transcription	NHLF	lung
17	chr3:156855600-156866000	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr3:156855600-156867200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr3:156855800-156865800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:156855800-156867400	Strong transcription	Primary T helper cells PMA-I stimulated	--
21	chr3:156856000-156870800	Strong transcription	Primary T cells from cord blood	blood
22	chr3:156856000-156874600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr3:156858000-156871200	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr3:156858000-156872000	Strong transcription	Rectal Mucosa Donor 29	rectum
25	chr3:156858200-156870400	Strong transcription	Liver	Liver
26	chr3:156858200-156871200	Strong transcription	Adipose Nuclei	Adipose
27	chr3:156858400-156876400	Strong transcription	Fetal Muscle Trunk	muscle
28	chr3:156858600-156871200	Strong transcription	Duodenum Mucosa	Duodenum
29	chr3:156858600-156871200	Strong transcription	Stomach Smooth Muscle	stomach
30	chr3:156858600-156872200	Strong transcription	Primary B cells from cord blood	blood
31	chr3:156858600-156872400	Strong transcription	Sigmoid Colon	Sigmoid Colon
32	chr3:156858800-156865000	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr3:156859000-156871800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr3:156859200-156866600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr3:156859200-156869600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
36	chr3:156859200-156870800	Strong transcription	Primary T helper cells fromperipheralblood	blood
37	chr3:156859400-156872200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr3:156859400-156872400	Strong transcription	Primary B cells from peripheral blood	blood
39	chr3:156859400-156876200	Strong transcription	Placenta	Placenta
40	chr3:156859800-156871600	Strong transcription	Primary neutrophils fromperipheralblood	blood
41	chr3:156859800-156871800	Strong transcription	Fetal Muscle Leg	muscle
42	chr3:156860000-156867200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr3:156860000-156871000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr3:156860000-156871000	Strong transcription	Brain Substantia Nigra	brain
45	chr3:156860000-156871200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr3:156860000-156872000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr3:156860000-156872200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr3:156860000-156872200	Strong transcription	A549	lung
49	chr3:156860000-156872400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
50	chr3:156860000-156872400	Strong transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links