Variant report

Variant	rs10923926
Chromosome Location	chr1:120489057-120489058
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:120466619..120469104-chr1:120488906..120491795,2	K562	blood:
2	chr1:120411363..120413507-chr1:120488348..120490535,2	MCF-7	breast:
3	chr1:120485036..120488098-chr1:120488284..120491170,3	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10127888	0.83[CEU][hapmap]
rs10494235	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10923929	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10923931	0.83[CEU][hapmap]
rs1493694	0.83[CEU][hapmap]
rs1493695	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1493696	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1493698	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2453040	0.84[CEU][hapmap]
rs2453042	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2453044	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2453055	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2453056	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2453058	0.83[CEU][hapmap]
rs2487568	0.91[CEU][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493389	0.83[CEU][hapmap]
rs2493391	0.84[CEU][hapmap]
rs2493392	0.83[CEU][hapmap]
rs2493394	0.84[CEU][hapmap]
rs2493398	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493410	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493411	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493416	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2493419	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2493420	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2641316	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2641317	0.83[CEU][hapmap]
rs2641338	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2793823	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2793827	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2793829	0.83[CEU][hapmap]
rs2793830	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2793831	0.83[CEU][hapmap]
rs2934381	0.83[CEU][hapmap]
rs2934387	0.83[CEU][hapmap]
rs327194	0.82[CEU][hapmap]
rs327196	1.00[CEU][hapmap]
rs4659250	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs5025718	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6688004	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs699780	0.92[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7515431	0.83[CEU][hapmap]
rs7534585	0.84[CEU][hapmap]
rs7534586	0.83[CEU][hapmap]
rs835573	0.92[CEU][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs835574	1.00[CEU][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs947273	0.92[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428201	chr1:120267313-120697156	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	esv2757750	chr1:120267313-121226013	Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	esv2758965	chr1:120267313-121226013	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
4	esv1816057	chr1:120469050-120697156	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS 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 miRNA target site	10 gene(s)	inside rSNPs	diseases
5	esv1818054	chr1:120469050-120697156	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	esv1844863	chr1:120469050-120697156	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	esv1850218	chr1:120469050-120697156	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv427730	chr1:120469050-120697156	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:120468400-120495800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:120468400-120506200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:120468400-120507400	Weak transcription	Right Ventricle	heart
4	chr1:120468600-120496000	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr1:120468600-120532800	Weak transcription	Stomach Mucosa	stomach
6	chr1:120476400-120507400	Weak transcription	Brain Angular Gyrus	brain
7	chr1:120477000-120497200	Weak transcription	Small Intestine	intestine
8	chr1:120478800-120508800	Weak transcription	A549	lung
9	chr1:120478800-120511000	Strong transcription	Monocytes-CD14+_RO01746	blood
10	chr1:120479000-120511000	Strong transcription	Primary monocytes fromperipheralblood	blood
11	chr1:120479200-120490800	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr1:120479200-120491000	Weak transcription	Fetal Brain Male	brain
13	chr1:120479600-120493000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr1:120479600-120504000	Weak transcription	Brain Cingulate Gyrus	brain
15	chr1:120480400-120507800	Weak transcription	Fetal Brain Female	brain
16	chr1:120480600-120490000	Weak transcription	Brain Germinal Matrix	brain
17	chr1:120480600-120490800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr1:120480600-120490800	Weak transcription	Skeletal Muscle Male	skeletal muscle
19	chr1:120480600-120490800	Weak transcription	HepG2	liver
20	chr1:120480600-120491000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr1:120480600-120492400	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr1:120480600-120492600	Weak transcription	HUVEC	blood vessel
23	chr1:120480600-120495000	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr1:120480600-120503600	Weak transcription	Brain Substantia Nigra	brain
25	chr1:120480600-120507400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr1:120482600-120490800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr1:120482600-120490800	Weak transcription	Hela-S3	cervix
28	chr1:120482800-120489800	Weak transcription	HUES48 Cell Line	embryonic stem cell
29	chr1:120482800-120490800	Weak transcription	Fetal Thymus	thymus
30	chr1:120483200-120490000	Weak transcription	HUES64 Cell Line	embryonic stem cell
31	chr1:120483400-120490200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
32	chr1:120483400-120490800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr1:120483400-120490800	Weak transcription	Fetal Intestine Small	intestine
34	chr1:120483400-120490800	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr1:120483400-120490800	Weak transcription	Stomach Smooth Muscle	stomach
36	chr1:120483400-120492600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr1:120483600-120490000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr1:120483600-120490200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
39	chr1:120483600-120490400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr1:120483600-120491000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr1:120483600-120491000	Weak transcription	Colonic Mucosa	Colon
42	chr1:120483600-120492400	Weak transcription	Brain Hippocampus Middle	brain
43	chr1:120483600-120496000	Weak transcription	Brain Anterior Caudate	brain
44	chr1:120483800-120491000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr1:120484000-120491000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr1:120484000-120492800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr1:120484200-120491000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr1:120484200-120492400	Weak transcription	Psoas Muscle	Psoas
49	chr1:120484400-120489200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr1:120484400-120490000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links