Variant report

Variant	rs6659705
Chromosome Location	chr1:151769750-151769751
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr1:151769658-151769803	MCF10A-Er-Src	breast:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:151512673..151514218-chr1:151769581..151771574,2	MCF-7	breast:
2	chr1:151768576..151770076-chr2:178087372..178090001,2	K562	blood:
3	chr1:151768494..151771422-chr17:57914109..57917463,3	MCF-7	breast:
4	chr1:151766933..151770312-chr1:151775882..151779095,3	MCF-7	breast:
5	chr1:151768081..151769884-chr1:151790238..151792555,2	MCF-7	breast:
6	chr1:151768266..151770504-chr1:151777797..151779723,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000269489	TF binding region
ENSG00000143367	Chromatin interaction
ENSG00000062716	Chromatin interaction
ENSG00000213171	Chromatin interaction
ENSG00000232536	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1054479	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10788809	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11204884	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11204892	0.97[EUR][1000 genomes]
rs11576810	0.81[ASN][1000 genomes]
rs11585294	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11586446	0.81[ASN][1000 genomes]
rs11586946	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11588258	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11588634	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11810571	0.99[EUR][1000 genomes]
rs1196456	0.95[EUR][1000 genomes]
rs1196467	0.81[ASN][1000 genomes]
rs12238987	0.99[EUR][1000 genomes]
rs13376155	0.81[ASN][1000 genomes]
rs1521185	0.99[EUR][1000 genomes]
rs17568246	0.81[ASN][1000 genomes]
rs3790514	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3811414	0.99[EUR][1000 genomes]
rs3811415	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3811416	0.99[EUR][1000 genomes]
rs4504897	0.99[EUR][1000 genomes]
rs4618976	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4845356	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4845570	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4845579	0.99[EUR][1000 genomes]
rs61815078	0.81[ASN][1000 genomes]
rs6664467	0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6673002	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6673917	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6681093	0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6683364	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6694952	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7007	0.81[ASN][1000 genomes]
rs7416415	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7542898	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[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	nsv1010398	chr1:151761649-151790940	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:151764200-151770200	Weak transcription	Aorta	Aorta
2	chr1:151764200-151772000	Weak transcription	Primary T cells fromperipheralblood	blood
3	chr1:151764200-151772800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr1:151764200-151772800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr1:151764200-151772800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr1:151764200-151773000	Weak transcription	Thymus	Thymus
7	chr1:151764200-151778800	Weak transcription	Pancreas	Pancrea
8	chr1:151764200-151779600	Weak transcription	Gastric	stomach
9	chr1:151764200-151787000	Weak transcription	Right Ventricle	heart
10	chr1:151764200-151792800	Weak transcription	Lung	lung
11	chr1:151764400-151771200	Weak transcription	Fetal Intestine Small	intestine
12	chr1:151764400-151779200	Weak transcription	Liver	Liver
13	chr1:151764400-151779800	Weak transcription	Brain Angular Gyrus	brain
14	chr1:151764600-151770000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr1:151764600-151770200	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr1:151764600-151770600	Weak transcription	Rectal Smooth Muscle	rectum
17	chr1:151764600-151771200	Weak transcription	Adipose Nuclei	Adipose
18	chr1:151764600-151771400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:151764600-151771400	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr1:151764600-151779400	Weak transcription	Brain Cingulate Gyrus	brain
21	chr1:151764600-151779400	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr1:151764600-151782000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr1:151764600-151787600	Weak transcription	Primary T cells from cord blood	blood
24	chr1:151764800-151771400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr1:151765000-151771400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr1:151765000-151772200	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr1:151765000-151779400	Weak transcription	Brain Hippocampus Middle	brain
28	chr1:151765400-151772800	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr1:151765400-151784200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
30	chr1:151765800-151772000	Weak transcription	Fetal Brain Female	brain
31	chr1:151766000-151771800	Weak transcription	Brain Germinal Matrix	brain
32	chr1:151766000-151772600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr1:151766000-151780200	Weak transcription	Dnd41	blood
34	chr1:151768600-151771600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr1:151768800-151769800	Strong transcription	Brain Anterior Caudate	brain
36	chr1:151769200-151770600	Strong transcription	Stomach Smooth Muscle	stomach
37	chr1:151769400-151770600	Strong transcription	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links