Variant report

Variant	rs6472222
Chromosome Location	chr8:66693445-66693446
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:66688789..66692346-chr8:66692358..66695249,3	MCF-7	breast:
2	chr8:66691641..66695119-chr8:66697675..66699405,3	K562	blood:
3	chr8:66687566..66690238-chr8:66691841..66694498,3	K562	blood:
4	chr8:66689911..66693837-chr8:66694545..66697182,4	K562	blood:

Extended variants
information (count: 22 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10504392	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs11782766	0.89[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs1316700	0.92[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.90[TSI][hapmap];0.89[EUR][1000 genomes]
rs1513723	0.83[JPT][hapmap]
rs16932346	0.90[JPT][hapmap]
rs1877640	0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs2063685	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28501341	0.89[CHD][hapmap];0.82[MEX][hapmap];0.94[YRI][hapmap]
rs56139500	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57463822	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6415604	0.90[JPT][hapmap]
rs6472221	0.81[CEU][hapmap]
rs6472225	1.00[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.94[YRI][hapmap];0.90[ASN][1000 genomes]
rs6472226	1.00[CHB][hapmap];0.88[CHD][hapmap];0.88[GIH][hapmap];0.91[JPT][hapmap];0.86[MEX][hapmap];0.88[YRI][hapmap];0.88[ASN][1000 genomes]
rs6472227	0.81[JPT][hapmap]
rs67441920	0.82[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs7000292	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7014676	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7828699	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.85[MKK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7829484	0.81[JPT][hapmap]
rs972362	0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs974149	0.86[ASW][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.85[MKK][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6472222	DNAJC5B	cis	lymphoblastoid	seeQTL
rs6472222	MTFR1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:66647800-66695200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr8:66674200-66695000	Weak transcription	Brain Angular Gyrus	brain
3	chr8:66678600-66701400	Weak transcription	Ovary	ovary
4	chr8:66686000-66694400	ZNF genes & repeats	GM12878-XiMat	blood
5	chr8:66686200-66693800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr8:66686200-66693800	ZNF genes & repeats	Primary B cells from cord blood	blood
7	chr8:66687000-66693600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
8	chr8:66687000-66693600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr8:66687000-66693600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr8:66687000-66694200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
11	chr8:66687200-66693800	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr8:66687200-66694200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr8:66687600-66693800	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
14	chr8:66688200-66694200	Strong transcription	Fetal Lung	lung
15	chr8:66688200-66706200	Weak transcription	Brain Anterior Caudate	brain
16	chr8:66688600-66694000	Strong transcription	Duodenum Mucosa	Duodenum
17	chr8:66688600-66695200	Strong transcription	HUES6 Cell Line	embryonic stem cell
18	chr8:66689000-66694800	Strong transcription	H1 Cell Line	embryonic stem cell
19	chr8:66689200-66694200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr8:66689200-66695400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
21	chr8:66689200-66695600	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr8:66689200-66707200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
23	chr8:66689600-66694800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
24	chr8:66689800-66693800	Strong transcription	Duodenum Smooth Muscle	Duodenum
25	chr8:66689800-66694000	Strong transcription	K562	blood
26	chr8:66689800-66694200	Strong transcription	Brain Substantia Nigra	brain
27	chr8:66690000-66693800	Strong transcription	Brain Hippocampus Middle	brain
28	chr8:66690000-66694000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr8:66690400-66694200	Strong transcription	Fetal Intestine Large	intestine
30	chr8:66690600-66702400	Weak transcription	Esophagus	oesophagus
31	chr8:66690800-66693800	Strong transcription	HSMM	muscle
32	chr8:66690800-66694200	Strong transcription	Sigmoid Colon	Sigmoid Colon
33	chr8:66690800-66694600	Strong transcription	Fetal Brain Female	brain
34	chr8:66690800-66694800	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr8:66690800-66695200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr8:66690800-66695600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr8:66690800-66696400	Strong transcription	Fetal Thymus	thymus
38	chr8:66690800-66697600	Weak transcription	Small Intestine	intestine
39	chr8:66691000-66693800	Strong transcription	Liver	Liver
40	chr8:66691000-66694200	Strong transcription	Primary T killer memory cells from peripheral blood	blood
41	chr8:66691000-66694400	Strong transcription	Cortex derived primary cultured neurospheres	brain
42	chr8:66691000-66694400	Weak transcription	Osteobl	bone
43	chr8:66691000-66695400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr8:66691000-66695600	Weak transcription	HUVEC	blood vessel
45	chr8:66691000-66696000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr8:66691000-66696000	Strong transcription	Thymus	Thymus
47	chr8:66691000-66702200	Weak transcription	Spleen	Spleen
48	chr8:66691000-66702400	Weak transcription	Colonic Mucosa	Colon
49	chr8:66691200-66693600	Strong transcription	Primary monocytes fromperipheralblood	blood
50	chr8:66691200-66693600	Strong transcription	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links