Variant report

Variant	rs6424867
Chromosome Location	chr1:172291090-172291091
allele	A/G
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:172290966..172293542-chr1:172305681..172308662,2	MCF-7	breast:
2	chr1:172290323..172292944-chr1:172297056..172298732,2	MCF-7	breast:
3	chr1:172223489..172225833-chr1:172289738..172293302,4	MCF-7	breast:
4	chr1:172290799..172293766-chr1:172293837..172296183,4	MCF-7	breast:
5	chr1:172063383..172065738-chr1:172289085..172291783,2	MCF-7	breast:
6	chr1:172290820..172291829-chr1:172368303..172369352,3	MCF-7	breast:
7	chr1:172253395..172255527-chr1:172290385..172292894,2	MCF-7	breast:
8	chr1:172244510..172246522-chr1:172290374..172293118,2	MCF-7	breast:

No data

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10752923	0.91[ASN][1000 genomes]
rs12096225	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12097276	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2251991	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2254703	0.91[ASN][1000 genomes]
rs2254720	0.91[ASN][1000 genomes]
rs2254810	0.91[ASN][1000 genomes]
rs2255076	0.91[ASN][1000 genomes]
rs2255460	0.91[ASN][1000 genomes]
rs2255707	0.97[ASN][1000 genomes]
rs2256059	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2422076	0.91[ASN][1000 genomes]
rs2422077	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586390	0.91[ASN][1000 genomes]
rs2586395	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586396	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586398	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586399	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586400	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586402	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586405	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586406	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586409	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586414	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586417	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586418	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586419	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586422	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586423	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2586425	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586426	0.91[ASN][1000 genomes]
rs2757485	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757486	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757487	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757488	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757489	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757490	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757491	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757492	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757497	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757498	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757499	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757500	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757501	0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2757502	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757505	0.91[ASN][1000 genomes]
rs2757506	0.97[ASN][1000 genomes]
rs61807830	1.00[ASN][1000 genomes]
rs61807832	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6677550	0.91[ASN][1000 genomes]
rs6702094	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73044902	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74124018	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425269	0.91[ASN][1000 genomes]
rs9425271	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425284	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425285	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425544	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425552	0.85[ASN][1000 genomes]
rs9633302	0.91[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	nsv1006542	chr1:172253765-172304690	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172272600-172291600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:172275200-172309800	Weak transcription	Left Ventricle	heart
3	chr1:172289600-172293200	Enhancers	Fetal Kidney	kidney
4	chr1:172289800-172291200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr1:172289800-172291200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr1:172289800-172291200	Enhancers	Adipose Nuclei	Adipose
7	chr1:172289800-172291200	Flanking Active TSS	A549	lung
8	chr1:172289800-172291200	Enhancers	Hela-S3	cervix
9	chr1:172289800-172291400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr1:172289800-172291400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr1:172289800-172291400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr1:172289800-172291400	Enhancers	Colon Smooth Muscle	Colon
13	chr1:172289800-172291400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr1:172289800-172291400	Enhancers	HSMM	muscle
15	chr1:172289800-172291600	Enhancers	Sigmoid Colon	Sigmoid Colon
16	chr1:172289800-172291800	Enhancers	Fetal Lung	lung
17	chr1:172289800-172291800	Enhancers	Rectal Smooth Muscle	rectum
18	chr1:172289800-172292800	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr1:172289800-172293200	Enhancers	Ovary	ovary
20	chr1:172289800-172293400	Enhancers	Fetal Muscle Leg	muscle
21	chr1:172289800-172295200	Enhancers	Fetal Stomach	stomach
22	chr1:172290000-172291800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr1:172290000-172292400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
24	chr1:172290000-172292400	Enhancers	Brain Hippocampus Middle	brain
25	chr1:172290200-172291400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr1:172290200-172291400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr1:172290200-172291400	Weak transcription	Fetal Muscle Trunk	muscle
28	chr1:172290200-172291400	Enhancers	HMEC	breast
29	chr1:172290200-172291600	Enhancers	NHLF	lung
30	chr1:172290200-172292200	Enhancers	ES-I3 Cell Line	embryonic stem cell
31	chr1:172290200-172292800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr1:172290200-172295600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr1:172290400-172292200	Flanking Active TSS	HSMMtube	muscle
34	chr1:172290400-172292200	Flanking Active TSS	NHDF-Ad	bronchial
35	chr1:172290600-172291200	Weak transcription	Fetal Brain Female	brain
36	chr1:172290600-172291400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr1:172290600-172291400	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr1:172290600-172291400	Enhancers	Stomach Smooth Muscle	stomach
39	chr1:172290600-172291600	Enhancers	NH-A	brain
40	chr1:172290600-172291800	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr1:172290600-172291800	Enhancers	Stomach Mucosa	stomach
42	chr1:172290600-172292200	Enhancers	Brain Substantia Nigra	brain
43	chr1:172290600-172292400	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr1:172290600-172295400	Enhancers	Breast Myoepithelial Primary Cells	Breast
45	chr1:172290800-172291200	Weak transcription	Fetal Brain Male	brain
46	chr1:172290800-172291800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr1:172290800-172291800	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr1:172291000-172291400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr1:172291000-172291400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr1:172291000-172291400	Flanking Active TSS	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links