Variant report

Variant	rs6859329
Chromosome Location	chr5:147027282-147027283
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr5:147027108-147027422	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
JAKMIP2	TF binding region

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

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10452517	0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs10452518	0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs10452530	0.94[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs1159523	0.96[YRI][hapmap];0.83[AFR][1000 genomes]
rs12657682	0.97[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs12658788	0.90[CHB][hapmap];0.95[JPT][hapmap];0.88[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs12658834	0.90[CHB][hapmap];0.95[JPT][hapmap];0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs13158025	0.94[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs13162410	0.93[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs1347137	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1347138	0.89[AFR][1000 genomes]
rs1347139	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1347140	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1432831	0.84[EUR][1000 genomes]
rs17106902	0.84[EUR][1000 genomes]
rs17106906	0.84[EUR][1000 genomes]
rs17106977	0.88[ASN][1000 genomes]
rs17107039	0.96[YRI][hapmap];0.81[AFR][1000 genomes]
rs17107043	0.96[YRI][hapmap];0.87[AFR][1000 genomes]
rs17107055	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs17107069	0.89[EUR][1000 genomes]
rs17107091	0.95[EUR][1000 genomes]
rs17107108	0.84[EUR][1000 genomes]
rs17107113	0.84[EUR][1000 genomes]
rs2053051	0.97[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2116764	0.89[EUR][1000 genomes]
rs2116765	0.92[YRI][hapmap];0.84[AFR][1000 genomes]
rs2116766	1.00[CEU][hapmap];0.81[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34147729	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs35246628	0.87[ASN][1000 genomes]
rs35416673	0.88[AFR][1000 genomes]
rs35456547	0.89[EUR][1000 genomes]
rs35542336	0.94[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4147461	0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4147462	0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4147463	0.95[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4147464	0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs4382157	0.82[AFR][1000 genomes]
rs4489050	0.94[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4705188	0.88[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs58108907	0.89[EUR][1000 genomes]
rs6860455	0.89[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6862046	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs6883287	0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs6887481	0.96[YRI][hapmap];0.90[AFR][1000 genomes]
rs6896560	0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs73268170	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73268172	0.89[AFR][1000 genomes]
rs7703612	0.95[EUR][1000 genomes]
rs7703708	0.89[EUR][1000 genomes]
rs7709287	0.95[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7735403	0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7737054	0.84[EUR][1000 genomes]
rs9325048	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs9918176	0.89[EUR][1000 genomes]

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:146957800-147038000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr5:147009400-147033200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr5:147009800-147051200	Weak transcription	Fetal Muscle Trunk	muscle
4	chr5:147010800-147028600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:147013000-147027400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr5:147013000-147030200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
7	chr5:147013000-147038400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr5:147014000-147029800	Strong transcription	HUES48 Cell Line	embryonic stem cell
9	chr5:147014000-147030400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:147014200-147030400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
11	chr5:147015000-147030000	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr5:147015200-147029000	Strong transcription	H1 Cell Line	embryonic stem cell
13	chr5:147015400-147050000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr5:147016400-147052400	Weak transcription	Primary B cells from cord blood	blood
15	chr5:147016600-147037400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr5:147016600-147037800	Weak transcription	Fetal Stomach	stomach
17	chr5:147016600-147038200	Weak transcription	Brain Angular Gyrus	brain
18	chr5:147016600-147047400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr5:147020000-147037000	Weak transcription	Fetal Brain Male	brain
20	chr5:147021400-147037200	Weak transcription	Fetal Brain Female	brain
21	chr5:147021400-147042800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr5:147022800-147037600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr5:147023200-147037600	Weak transcription	Thymus	Thymus
24	chr5:147023200-147037800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
25	chr5:147023400-147036800	Weak transcription	Brain Germinal Matrix	brain
26	chr5:147023800-147029000	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr5:147023800-147037400	Weak transcription	Fetal Lung	lung
28	chr5:147024200-147028200	Weak transcription	Primary hematopoietic stem cells	blood
29	chr5:147024200-147038400	Weak transcription	Brain Cingulate Gyrus	brain
30	chr5:147024600-147027800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr5:147024600-147035600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr5:147024600-147037800	Weak transcription	Brain Anterior Caudate	brain
33	chr5:147024800-147037600	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr5:147025000-147028200	Weak transcription	Cortex derived primary cultured neurospheres	brain
35	chr5:147025200-147041200	Weak transcription	Brain Hippocampus Middle	brain
36	chr5:147025200-147053000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr5:147025400-147027600	Weak transcription	Primary T cells from cord blood	blood
38	chr5:147025400-147034800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr5:147025400-147037400	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr5:147025400-147037400	Weak transcription	Fetal Thymus	thymus
41	chr5:147025400-147038200	Weak transcription	Brain Substantia Nigra	brain
42	chr5:147025400-147038400	Weak transcription	Stomach Smooth Muscle	stomach
43	chr5:147025400-147040400	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr5:147025600-147027600	Weak transcription	HepG2	liver
45	chr5:147025600-147031000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr5:147025800-147028400	Enhancers	Liver	Liver
47	chr5:147026000-147027400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr5:147027000-147028600	Strong transcription	HUES6 Cell Line	embryonic stem cell
49	chr5:147027000-147031200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links