Variant report

Variant	rs1150712
Chromosome Location	chr6:28213239-28213240
allele	A/C/G/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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28109153..28111615-chr6:28211056..28213393,2	K562	blood:
2	chr6:28210791..28213361-chr6:28321358..28323134,2	K562	blood:
3	chr6:28198039..28200844-chr6:28211243..28213952,3	MCF-7	breast:
4	chr6:28212035..28214916-chr6:28303443..28306359,2	K562	blood:
5	chr6:28206024..28209591-chr6:28211608..28215918,4	MCF-7	breast:
6	chr6:27861881..27864570-chr6:28212073..28213780,2	MCF-7	breast:
7	chr6:28126647..28130096-chr6:28211376..28213858,3	K562	blood:
8	chr6:28211961..28215218-chr6:28302381..28305532,5	K562	blood:
9	chr6:28202226..28208942-chr6:28209296..28217649,12	MCF-7	breast:
10	chr6:28212274..28214465-chr6:28325951..28327477,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000226314	Chromatin interaction
ENSG00000235109	Chromatin interaction
ENSG00000198315	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1150703	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.87[JPT][hapmap];0.96[LWK][hapmap];1.00[MEX][hapmap];0.82[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11965542	1.00[GIH][hapmap]
rs1233712	0.83[AMR][1000 genomes]
rs16893619	1.00[GIH][hapmap]
rs16893673	1.00[GIH][hapmap]
rs16893699	1.00[GIH][hapmap]
rs16893804	0.92[CHB][hapmap];0.81[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16893892	0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.87[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2142731	0.85[CHB][hapmap];0.82[CHD][hapmap];1.00[MEX][hapmap];0.87[AMR][1000 genomes]
rs4713155	0.93[CHB][hapmap];0.94[JPT][hapmap];0.87[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4713163	1.00[EUR][1000 genomes]
rs733743	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs988083	0.93[CHB][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs988084	0.86[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.87[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][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	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 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	chr6:28193600-28213400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr6:28193800-28218400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr6:28193800-28218400	Weak transcription	Stomach Mucosa	stomach
4	chr6:28194000-28213600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr6:28196800-28213600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:28199800-28213600	Weak transcription	NHDF-Ad	bronchial
7	chr6:28201600-28213400	Weak transcription	Fetal Kidney	kidney
8	chr6:28201600-28219400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:28203000-28218400	Weak transcription	HUVEC	blood vessel
10	chr6:28204000-28214200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr6:28206800-28213400	Weak transcription	Aorta	Aorta
12	chr6:28211000-28216200	Strong transcription	Brain Hippocampus Middle	brain
13	chr6:28211000-28216800	Strong transcription	Brain Germinal Matrix	brain
14	chr6:28211000-28217200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr6:28211000-28217200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:28211000-28217600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr6:28211000-28217600	Strong transcription	Primary T cells fromperipheralblood	blood
18	chr6:28211000-28217600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr6:28211000-28217600	Strong transcription	Placenta	Placenta
20	chr6:28211200-28216800	Strong transcription	Primary B cells from cord blood	blood
21	chr6:28211200-28217000	Strong transcription	HUES6 Cell Line	embryonic stem cell
22	chr6:28211200-28217400	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr6:28211200-28217600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:28211400-28214200	Weak transcription	Psoas Muscle	Psoas
25	chr6:28211400-28216200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
26	chr6:28211400-28216400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr6:28211400-28216400	Strong transcription	Primary B cells from peripheral blood	blood
28	chr6:28211400-28217000	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr6:28211600-28216200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:28211600-28216200	Strong transcription	Rectal Mucosa Donor 31	rectum
31	chr6:28211600-28216600	Strong transcription	Fetal Stomach	stomach
32	chr6:28211600-28216800	Strong transcription	Duodenum Smooth Muscle	Duodenum
33	chr6:28211600-28217000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr6:28211600-28217000	Strong transcription	Liver	Liver
35	chr6:28211600-28217600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
36	chr6:28211600-28217600	Strong transcription	Fetal Muscle Trunk	muscle
37	chr6:28211600-28217600	Strong transcription	Left Ventricle	heart
38	chr6:28211600-28217600	Strong transcription	Sigmoid Colon	Sigmoid Colon
39	chr6:28211600-28217600	Strong transcription	Stomach Smooth Muscle	stomach
40	chr6:28211600-28217800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr6:28211600-28218000	Strong transcription	Fetal Muscle Leg	muscle
42	chr6:28211800-28215000	Strong transcription	Osteobl	bone
43	chr6:28211800-28216000	Strong transcription	Fetal Brain Female	brain
44	chr6:28211800-28216400	Strong transcription	Skeletal Muscle Female	skeletal muscle
45	chr6:28211800-28217200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr6:28211800-28217400	Strong transcription	Primary T cells from cord blood	blood
47	chr6:28211800-28217400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr6:28211800-28217600	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr6:28211800-28217800	Strong transcription	Fetal Thymus	thymus
50	chr6:28212000-28215400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links