Variant report

Variant	rs6541370
Chromosome Location	chr1:95271526-95271527
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:94997312..94997997-chr1:95271190..95272030,3	MCF-7	breast:
2	chr1:94946734..94948200-chr1:95271052..95271779,5	K562	blood:
3	chr1:95271063..95271580-chr1:95508693..95509648,2	K562	blood:
4	chr1:95271098..95272014-chr1:95508742..95509603,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000117528	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10782992	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10782993	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10874894	0.85[YRI][hapmap];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1146458	1.00[ASN][1000 genomes]
rs2893277	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3860339	0.99[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3860345	1.00[ASN][1000 genomes]
rs3860348	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3860349	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3904553	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3904554	0.84[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3916208	1.00[ASN][1000 genomes]
rs3916432	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3936924	0.83[AMR][1000 genomes]
rs4847359	0.82[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6541372	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6665321	1.00[ASN][1000 genomes]
rs6702030	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7528707	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7543977	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9432373	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[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	nsv1001587	chr1:95027691-95318680	Weak transcription Strong transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95251000-95271600	Weak transcription	Small Intestine	intestine
2	chr1:95258200-95284800	Weak transcription	Gastric	stomach
3	chr1:95267200-95275200	Enhancers	Fetal Intestine Large	intestine
4	chr1:95267400-95272600	Enhancers	Fetal Muscle Leg	muscle
5	chr1:95267800-95271600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr1:95267800-95271600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr1:95267800-95271600	Weak transcription	Fetal Brain Male	brain
8	chr1:95267800-95271600	Weak transcription	HUVEC	blood vessel
9	chr1:95267800-95271800	Enhancers	Rectal Mucosa Donor 29	rectum
10	chr1:95267800-95272000	Weak transcription	Primary T cells from cord blood	blood
11	chr1:95267800-95272200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr1:95268000-95271600	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr1:95268000-95271600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr1:95268000-95271800	Weak transcription	Primary B cells from cord blood	blood
15	chr1:95268000-95272000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr1:95268200-95271600	Weak transcription	Primary monocytes fromperipheralblood	blood
17	chr1:95268200-95271600	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr1:95268200-95271600	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr1:95268200-95271600	Weak transcription	NHEK	skin
20	chr1:95268200-95271800	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr1:95268200-95272200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr1:95268200-95272400	Enhancers	Brain Hippocampus Middle	brain
23	chr1:95268200-95273800	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr1:95268200-95274200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr1:95268200-95276800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr1:95268200-95285000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr1:95268400-95272600	Weak transcription	Dnd41	blood
28	chr1:95269000-95273800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
29	chr1:95269000-95282400	Weak transcription	Right Atrium	heart
30	chr1:95269200-95271600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr1:95269400-95271600	Weak transcription	Fetal Brain Female	brain
32	chr1:95269400-95271800	Weak transcription	Primary hematopoietic stem cells	blood
33	chr1:95269600-95271600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr1:95269600-95271600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr1:95269600-95271600	Weak transcription	NH-A	brain
36	chr1:95269600-95271600	Weak transcription	NHDF-Ad	bronchial
37	chr1:95269600-95271800	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr1:95269600-95271800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr1:95269600-95271800	Weak transcription	HSMM	muscle
40	chr1:95269600-95272000	Weak transcription	Duodenum Mucosa	Duodenum
41	chr1:95269600-95272000	Weak transcription	Ovary	ovary
42	chr1:95269600-95272200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr1:95269800-95271600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr1:95269800-95271600	Weak transcription	Fetal Thymus	thymus
45	chr1:95269800-95271800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr1:95269800-95271800	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr1:95269800-95271800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr1:95269800-95271800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr1:95269800-95271800	Weak transcription	Fetal Kidney	kidney
50	chr1:95269800-95271800	Weak transcription	HMEC	breast

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