Variant report

Variant	rs1778347
Chromosome Location	chr10:22938553-22938554
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:22937993..22940131-chr10:22944693..22947159,2	K562	blood:
2	chr10:22937875..22939631-chr10:23001731..23003990,2	K562	blood:
3	chr10:22930057..22932318-chr10:22937347..22939667,3	K562	blood:
4	chr10:22938179..22940547-chr10:22940973..22943233,2	K562	blood:
5	chr10:22937664..22939892-chr10:22939931..22943485,3	MCF-7	breast:
6	chr10:22936873..22940866-chr10:22947347..22949426,3	K562	blood:
7	chr10:22936873..22939042-chr10:22947347..22949237,2	K562	blood:

Variant related genes	Relation type
ENSG00000150867	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10764339	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10764344	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10828323	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10828324	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs10828325	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10828328	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs11013052	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11013059	0.96[ASN][1000 genomes]
rs11013066	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11013067	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11013068	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs11013077	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs11013082	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11013091	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs1171489	0.88[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1171490	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1171492	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1171493	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1171494	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1171497	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1171499	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1171503	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1171504	0.96[CEU][hapmap];1.00[CHB][hapmap];0.89[YRI][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1171506	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1171509	0.91[CEU][hapmap];1.00[CHB][hapmap];0.87[YRI][hapmap]
rs12246676	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12253847	1.00[CHB][hapmap]
rs12354766	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12356117	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12357289	0.87[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.80[EUR][1000 genomes]
rs12357384	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs12357444	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12358560	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs12360229	0.88[ASN][1000 genomes]
rs12360495	0.88[ASN][1000 genomes]
rs12765474	0.88[ASN][1000 genomes]
rs12770214	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs12772257	0.88[ASN][1000 genomes]
rs12774725	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs1326340	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1343504	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1359641	1.00[YRI][hapmap]
rs1359643	1.00[YRI][hapmap]
rs1409393	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1409394	0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1409395	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1614387	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1627549	1.00[YRI][hapmap]
rs16922592	0.93[YRI][hapmap]
rs1750747	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs1750748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1750764	1.00[YRI][hapmap]
rs1750765	1.00[YRI][hapmap]
rs1750766	0.94[YRI][hapmap]
rs1750768	1.00[YRI][hapmap]
rs1750775	0.92[CEU][hapmap];0.95[EUR][1000 genomes]
rs1750777	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1750778	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1778309	0.93[YRI][hapmap]
rs1778313	1.00[YRI][hapmap]
rs1778321	0.94[YRI][hapmap]
rs1778322	1.00[YRI][hapmap]
rs1778334	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1778335	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1778338	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1778339	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1778340	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1778342	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1778345	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1778346	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2031620	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2154053	0.92[CEU][hapmap];0.92[EUR][1000 genomes]
rs2559534	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2798981	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34208652	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34786070	1.00[ASN][1000 genomes]
rs35885150	0.96[ASN][1000 genomes]
rs7071306	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7912132	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs7917130	0.85[ASN][1000 genomes]
rs7917460	0.85[ASN][1000 genomes]
rs7921549	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs943196	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs943197	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs943198	1.00[ASN][1000 genomes]
rs9645524	1.00[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1830947	chr10:22881196-23004381	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv831809	chr10:22918101-23069676	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:22915000-22951800	Weak transcription	Fetal Intestine Small	intestine
2	chr10:22921000-22940400	Weak transcription	Ovary	ovary
3	chr10:22926000-22938600	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr10:22927800-22942800	Enhancers	Brain Anterior Caudate	brain
5	chr10:22929200-22938600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr10:22929600-22948400	Enhancers	Brain Cingulate Gyrus	brain
7	chr10:22929800-22939800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr10:22930400-22938600	Enhancers	Brain Hippocampus Middle	brain
9	chr10:22931600-22941000	Enhancers	Brain Angular Gyrus	brain
10	chr10:22932400-22940400	Enhancers	Fetal Thymus	thymus
11	chr10:22932400-22944200	Weak transcription	Brain Germinal Matrix	brain
12	chr10:22933600-22944200	Weak transcription	Fetal Stomach	stomach
13	chr10:22934800-22939400	Enhancers	Dnd41	blood
14	chr10:22934800-22942400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr10:22935000-22938600	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr10:22935000-22939000	Enhancers	Thymus	Thymus
17	chr10:22935000-22945400	Enhancers	Primary B cells from peripheral blood	blood
18	chr10:22935200-22938600	Enhancers	HUES64 Cell Line	embryonic stem cell
19	chr10:22935200-22938600	Enhancers	iPS-20b Cell Line	embryonic stem cell
20	chr10:22935200-22938800	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr10:22935200-22939200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr10:22935200-22953000	Enhancers	Brain Substantia Nigra	brain
23	chr10:22935400-22938800	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr10:22935600-22938800	Enhancers	H1 Cell Line	embryonic stem cell
25	chr10:22935600-22939000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr10:22936200-22938600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr10:22936200-22938600	Enhancers	HSMMtube	muscle
28	chr10:22936200-22939600	Enhancers	Sigmoid Colon	Sigmoid Colon
29	chr10:22936400-22958000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr10:22936600-22938800	Enhancers	HSMM	muscle
31	chr10:22936600-22938800	Enhancers	NHEK	skin
32	chr10:22936600-22942000	Enhancers	Primary neutrophils fromperipheralblood	blood
33	chr10:22936600-22943800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr10:22936800-22938600	Enhancers	Stomach Mucosa	stomach
35	chr10:22936800-22938800	Enhancers	Colon Smooth Muscle	Colon
36	chr10:22936800-22939200	Flanking Active TSS	GM12878-XiMat	blood
37	chr10:22936800-22939600	Enhancers	K562	blood
38	chr10:22936800-22940200	Weak transcription	Fetal Muscle Leg	muscle
39	chr10:22936800-22941800	Weak transcription	Esophagus	oesophagus
40	chr10:22936800-22944600	Weak transcription	Gastric	stomach
41	chr10:22936800-22944800	Enhancers	Primary B cells from cord blood	blood
42	chr10:22937000-22939200	Weak transcription	Small Intestine	intestine
43	chr10:22937000-22941800	Weak transcription	Aorta	Aorta
44	chr10:22937000-22944800	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr10:22937200-22938800	Enhancers	Fetal Lung	lung
46	chr10:22937400-22938800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr10:22937400-22939000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
48	chr10:22937400-22939000	Enhancers	Skeletal Muscle Male	skeletal muscle
49	chr10:22937400-22939200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
50	chr10:22937400-22939200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links