Variant report

Variant	rs16863238
Chromosome Location	chr3:150903122-150903123
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:150894791..150897872-chr3:150901090..150904016,3	K562	blood:

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10513385	0.87[CHB][hapmap];0.91[JPT][hapmap]
rs10513386	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.90[ASN][1000 genomes]
rs11707833	1.00[EUR][1000 genomes]
rs11713719	1.00[EUR][1000 genomes]
rs11714651	1.00[EUR][1000 genomes]
rs11715095	1.00[EUR][1000 genomes]
rs11715411	1.00[EUR][1000 genomes]
rs12636713	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1355125	1.00[EUR][1000 genomes]
rs1431494	0.87[CHB][hapmap];1.00[GIH][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap]
rs1431495	0.85[CHB][hapmap];0.92[JPT][hapmap]
rs1431496	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16863149	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs16863153	1.00[EUR][1000 genomes]
rs16863161	1.00[MEX][hapmap]
rs16863203	1.00[EUR][1000 genomes]
rs16863204	0.80[CHD][hapmap];1.00[TSI][hapmap]
rs16863208	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs16863223	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs16863229	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[ASN][1000 genomes]
rs16863239	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2870415	1.00[GIH][hapmap]
rs3732755	0.87[CHB][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap]
rs3732756	0.85[CHD][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4330297	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs58593708	1.00[EUR][1000 genomes]
rs61099669	0.98[ASN][1000 genomes]
rs6772538	0.87[CHB][hapmap];0.92[JPT][hapmap]
rs6775269	0.86[CHB][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap]
rs6802229	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs73016801	0.98[ASN][1000 genomes]
rs73018604	1.00[ASN][1000 genomes]
rs73018614	0.98[ASN][1000 genomes]
rs73019085	0.90[ASN][1000 genomes]
rs73019091	0.90[ASN][1000 genomes]
rs7615523	0.87[CHB][hapmap];0.92[JPT][hapmap]
rs7616375	0.87[CHB][hapmap];0.92[JPT][hapmap]
rs7650189	0.98[ASN][1000 genomes]
rs7650499	0.98[ASN][1000 genomes]
rs7650959	0.93[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs906766	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs9917673	0.87[CHB][hapmap];0.92[JPT][hapmap];1.00[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150872800-150910800	Weak transcription	Brain Germinal Matrix	brain
2	chr3:150873200-150910200	Weak transcription	Brain Angular Gyrus	brain
3	chr3:150873800-150913800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:150878000-150946000	Weak transcription	Placenta	Placenta
5	chr3:150884200-150906600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:150889000-150904000	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:150889200-150908200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:150889200-150914800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:150889400-150903600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:150889600-150904000	Weak transcription	Brain Anterior Caudate	brain
11	chr3:150889600-150913800	Weak transcription	Fetal Muscle Leg	muscle
12	chr3:150890600-150923400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr3:150892400-150904200	Weak transcription	Primary hematopoietic stem cells	blood
14	chr3:150894000-150904200	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr3:150896200-150927800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr3:150896400-150904400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr3:150896600-150918200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:150897200-150916200	Weak transcription	Fetal Intestine Small	intestine
19	chr3:150897600-150913800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr3:150898600-150917200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:150899000-150917000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:150900400-150910200	Weak transcription	Fetal Brain Female	brain
23	chr3:150900400-150917200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr3:150900600-150904200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr3:150900600-150904200	Weak transcription	Brain Cingulate Gyrus	brain
26	chr3:150900600-150908400	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr3:150900600-150917000	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr3:150900800-150917200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr3:150901000-150908600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr3:150901200-150907000	Weak transcription	Thymus	Thymus
31	chr3:150901200-150917600	Weak transcription	Fetal Thymus	thymus
32	chr3:150901200-150917800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr3:150901400-150904200	Weak transcription	Aorta	Aorta
34	chr3:150901400-150908400	Weak transcription	Dnd41	blood
35	chr3:150901400-150910200	Weak transcription	Brain Hippocampus Middle	brain
36	chr3:150901400-150911600	Weak transcription	Brain Substantia Nigra	brain
37	chr3:150901400-150914200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr3:150901400-150916200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
39	chr3:150901600-150906800	Weak transcription	HepG2	liver
40	chr3:150901600-150913600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr3:150901800-150918000	Strong transcription	Primary neutrophils fromperipheralblood	blood
42	chr3:150902000-150906600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr3:150902200-150904000	Weak transcription	Primary T cells from cord blood	blood
44	chr3:150902200-150904200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr3:150902200-150904200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
46	chr3:150902200-150906600	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr3:150902200-150916400	Weak transcription	Primary T helper cells fromperipheralblood	blood
48	chr3:150902400-150904400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr3:150902600-150904400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr3:150902600-150904600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links