Variant report

Variant	rs6673172
Chromosome Location	chr1:155530012-155530013
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:155520429..155523505-chr1:155527684..155531607,4	K562	blood:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10158433	1.00[MEX][hapmap]
rs10158907	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13373934	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13375289	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13375379	1.00[MEX][hapmap]
rs13376498	1.00[MKK][hapmap]
rs16836851	1.00[MEX][hapmap]
rs28491466	1.00[MEX][hapmap]
rs28516425	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28850118	1.00[AMR][1000 genomes]
rs35777901	1.00[ASW][hapmap];0.89[MKK][hapmap];1.00[YRI][hapmap]
rs57665266	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58932176	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59249132	1.00[AMR][1000 genomes]
rs59445713	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60137217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61103093	1.00[AMR][1000 genomes]
rs61425508	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6664370	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6665660	1.00[MEX][hapmap]
rs7519697	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7548199	1.00[MKK][hapmap]
rs959485	1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529709	chr1:155154933-155757219	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	450 gene(s)	inside rSNPs	diseases
2	esv33869	chr1:155223283-155917961	Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	187 gene(s)	inside rSNPs	diseases
3	esv1799856	chr1:155305059-155534616	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv1795662	chr1:155305059-155540660	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
5	nsv872468	chr1:155413304-155549562	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers 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	33 gene(s)	inside rSNPs	diseases
6	esv3431739	chr1:155514331-155664183	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
7	nsv946417	chr1:155529941-155533143	Flanking Active TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:155507000-155530200	Weak transcription	Rectal Mucosa Donor 31	rectum
2	chr1:155510600-155530200	Weak transcription	Right Ventricle	heart
3	chr1:155514400-155530200	Weak transcription	Pancreas	Pancrea
4	chr1:155514400-155530200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr1:155514400-155530200	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr1:155516000-155530200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr1:155517000-155531400	Weak transcription	Esophagus	oesophagus
8	chr1:155517600-155530200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr1:155518200-155531600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr1:155518600-155531400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr1:155518800-155530200	Weak transcription	Brain Substantia Nigra	brain
12	chr1:155518800-155530200	Weak transcription	HMEC	breast
13	chr1:155520200-155530200	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr1:155522200-155531400	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr1:155523400-155530200	Weak transcription	Fetal Kidney	kidney
16	chr1:155523800-155530200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr1:155524000-155530200	Weak transcription	NHLF	lung
18	chr1:155524800-155530200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr1:155525800-155530200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr1:155525800-155530400	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr1:155526000-155530200	Weak transcription	Fetal Intestine Large	intestine
22	chr1:155526200-155531600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr1:155526200-155531800	Weak transcription	Lung	lung
24	chr1:155526600-155530200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
25	chr1:155526600-155530200	Weak transcription	Fetal Muscle Leg	muscle
26	chr1:155526600-155530400	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr1:155526600-155530600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
28	chr1:155526800-155530600	Enhancers	Primary T helper naive cells from peripheral blood	blood
29	chr1:155526800-155530600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
30	chr1:155526800-155531400	Weak transcription	Fetal Muscle Trunk	muscle
31	chr1:155527600-155530200	Enhancers	Brain Hippocampus Middle	brain
32	chr1:155527600-155530400	Enhancers	Adipose Nuclei	Adipose
33	chr1:155527600-155530600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
34	chr1:155527600-155530800	Enhancers	Primary monocytes fromperipheralblood	blood
35	chr1:155527800-155530800	Enhancers	Liver	Liver
36	chr1:155528000-155530200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr1:155528000-155530200	Weak transcription	HUVEC	blood vessel
38	chr1:155528200-155530200	Enhancers	Colon Smooth Muscle	Colon
39	chr1:155528200-155530200	Weak transcription	Small Intestine	intestine
40	chr1:155528200-155530200	Weak transcription	Thymus	Thymus
41	chr1:155528400-155530200	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr1:155528400-155530200	Enhancers	Primary T cells from cord blood	blood
43	chr1:155528400-155530200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
44	chr1:155528600-155530200	Weak transcription	Gastric	stomach
45	chr1:155528600-155530200	Weak transcription	Right Atrium	heart
46	chr1:155528600-155530200	Enhancers	Monocytes-CD14+_RO01746	blood
47	chr1:155528600-155530800	Enhancers	Cortex derived primary cultured neurospheres	brain
48	chr1:155528600-155530800	Enhancers	Fetal Brain Male	brain
49	chr1:155528800-155530200	Weak transcription	Primary neutrophils fromperipheralblood	blood
50	chr1:155528800-155530200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links