Variant report

Variant	rs1754356
Chromosome Location	chr1:174778976-174778977
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	chr1:174772425..174774399-chr1:174777517..174779217,2	MCF-7	breast:
2	chr1:174729839..174732288-chr1:174778725..174780565,2	K562	blood:

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs10912809	1.00[EUR][1000 genomes]
rs10912815	1.00[EUR][1000 genomes]
rs10912816	1.00[EUR][1000 genomes]
rs10912818	1.00[EUR][1000 genomes]
rs10912819	1.00[EUR][1000 genomes]
rs10912847	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10912851	1.00[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10912858	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs10912864	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs11806870	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs12057161	1.00[EUR][1000 genomes]
rs12057359	1.00[EUR][1000 genomes]
rs12066268	1.00[EUR][1000 genomes]
rs12066421	1.00[EUR][1000 genomes]
rs12067791	1.00[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12068625	1.00[EUR][1000 genomes]
rs12069689	1.00[EUR][1000 genomes]
rs12070082	1.00[EUR][1000 genomes]
rs12072909	1.00[EUR][1000 genomes]
rs12075193	1.00[EUR][1000 genomes]
rs12077283	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12077880	1.00[EUR][1000 genomes]
rs12078714	1.00[EUR][1000 genomes]
rs12080070	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12080242	1.00[EUR][1000 genomes]
rs12084999	1.00[EUR][1000 genomes]
rs12088650	1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12095683	1.00[MEX][hapmap];1.00[TSI][hapmap]
rs12096717	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1231828	1.00[EUR][1000 genomes]
rs1329280	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1612104	1.00[EUR][1000 genomes]
rs1618234	0.92[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1653631	1.00[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1653633	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1653637	1.00[EUR][1000 genomes]
rs16847457	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs173000	1.00[EUR][1000 genomes]
rs1754358	0.88[AFR][1000 genomes]
rs189141	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs2116515	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2760059	1.00[EUR][1000 genomes]
rs2981891	1.00[EUR][1000 genomes]
rs2981895	1.00[EUR][1000 genomes]
rs2987871	1.00[EUR][1000 genomes]
rs2987878	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs3123641	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs332766	1.00[EUR][1000 genomes]
rs332775	1.00[EUR][1000 genomes]
rs332780	1.00[EUR][1000 genomes]
rs332785	1.00[EUR][1000 genomes]
rs332790	0.92[ASW][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs332792	1.00[EUR][1000 genomes]
rs333419	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs333425	0.84[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs333434	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35582650	1.00[EUR][1000 genomes]
rs392368	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs4290116	1.00[EUR][1000 genomes]
rs4309037	1.00[EUR][1000 genomes]
rs55659406	1.00[EUR][1000 genomes]
rs56106555	1.00[EUR][1000 genomes]
rs56357087	1.00[EUR][1000 genomes]
rs58238388	1.00[EUR][1000 genomes]
rs59073370	1.00[EUR][1000 genomes]
rs60283543	1.00[EUR][1000 genomes]
rs6672781	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6696432	1.00[EUR][1000 genomes]
rs6701696	1.00[EUR][1000 genomes]
rs74126848	1.00[EUR][1000 genomes]
rs74126851	1.00[EUR][1000 genomes]
rs74126855	1.00[EUR][1000 genomes]
rs74128516	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014637	chr1:174265631-174826765	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv535208	chr1:174265631-174826765	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2755184	chr1:174388343-174970343	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
4	nsv548198	chr1:174731596-174800872	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	esv1824383	chr1:174764839-174801748	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	esv1844306	chr1:174764839-174801748	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	esv1819206	chr1:174764839-174802731	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	esv1844208	chr1:174764839-174818547	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	esv1847553	chr1:174764839-174818547	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:174769600-174781200	Weak transcription	K562	blood
2	chr1:174769800-174787600	Weak transcription	Pancreas	Pancrea
3	chr1:174770000-174781200	Weak transcription	Liver	Liver
4	chr1:174770000-174781600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr1:174770000-174783000	Weak transcription	Ovary	ovary
6	chr1:174770000-174783600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
7	chr1:174770000-174784200	Weak transcription	HSMM	muscle
8	chr1:174770000-174794200	Weak transcription	Fetal Thymus	thymus
9	chr1:174770200-174784000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr1:174770200-174788200	Weak transcription	Primary T cells from cord blood	blood
11	chr1:174770400-174781200	Weak transcription	Fetal Intestine Small	intestine
12	chr1:174770400-174781800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr1:174770400-174782000	Weak transcription	Fetal Intestine Large	intestine
14	chr1:174770400-174784200	Weak transcription	Primary B cells from cord blood	blood
15	chr1:174770400-174784400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr1:174770600-174781600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr1:174770800-174783600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr1:174770800-174786400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr1:174770800-174787600	Weak transcription	Fetal Stomach	stomach
20	chr1:174771400-174779000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr1:174771400-174781800	Weak transcription	HSMMtube	muscle
22	chr1:174771600-174781400	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr1:174771600-174787400	Weak transcription	Fetal Brain Male	brain
24	chr1:174772200-174796600	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr1:174772600-174784200	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr1:174772600-174784400	Weak transcription	Brain Anterior Caudate	brain
27	chr1:174775800-174779200	Weak transcription	Brain Germinal Matrix	brain
28	chr1:174777200-174783000	Weak transcription	Brain Cingulate Gyrus	brain
29	chr1:174777600-174786000	Weak transcription	Left Ventricle	heart
30	chr1:174777600-174799800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr1:174778200-174779000	Enhancers	GM12878-XiMat	blood
32	chr1:174778400-174779000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
33	chr1:174778400-174779000	Enhancers	iPS-15b Cell Line	embryonic stem cell
34	chr1:174778400-174779200	Enhancers	H1 Cell Line	embryonic stem cell
35	chr1:174778400-174779200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr1:174778400-174779200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
37	chr1:174778400-174781400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr1:174778400-174781400	Weak transcription	Primary B cells from peripheral blood	blood
39	chr1:174778600-174779600	Enhancers	Brain Angular Gyrus	brain
40	chr1:174778600-174779600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
41	chr1:174778600-174783800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
42	chr1:174778800-174779400	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr1:174778800-174779400	Enhancers	Brain Substantia Nigra	brain
44	chr1:174778800-174779600	Enhancers	H9 Cell Line	embryonic stem cell
45	chr1:174778800-174779600	Enhancers	HUES48 Cell Line	embryonic stem cell
46	chr1:174778800-174779600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr1:174778800-174780000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr1:174778800-174780400	Weak transcription	Fetal Muscle Leg	muscle
49	chr1:174778800-174781200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links