Variant report

Variant	rs6849599
Chromosome Location	chr4:100770696-100770697
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:100765769..100768487-chr4:100770328..100771970,2	MCF-7	breast:
2	chr4:100761921..100765122-chr4:100767795..100771091,3	K562	blood:
3	chr4:100768566..100770766-chr4:100839767..100842129,2	K562	blood:

Extended variants
information (count: 52 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10026048	0.80[ASN][1000 genomes]
rs11097676	0.82[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs11097677	0.82[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs11097678	0.84[ASN][1000 genomes]
rs11732776	1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs11939538	0.80[LWK][hapmap]
rs1365491	0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs1365492	0.89[ASW][hapmap];0.89[CEU][hapmap];0.92[CHD][hapmap];0.82[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.91[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1365495	0.87[CHD][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs1426735	0.84[ASN][1000 genomes]
rs17029552	0.84[ASN][1000 genomes]
rs17029563	0.82[CHB][hapmap];0.87[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs17029583	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1863608	0.81[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs1896166	0.83[ASW][hapmap];0.87[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs1961323	0.96[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1972698	0.81[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2098937	0.87[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2114442	0.85[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2162386	0.84[CEU][hapmap]
rs2282588	0.81[CEU][hapmap];0.82[CHB][hapmap];0.87[CHD][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs2298735	0.87[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.81[MEX][hapmap];0.94[MKK][hapmap];0.82[ASN][1000 genomes]
rs28404345	0.87[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs2866174	0.81[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs28679452	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28706589	0.86[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs3756087	0.82[CHD][hapmap];1.00[JPT][hapmap]
rs3775499	0.85[CEU][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs3775500	0.82[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs3775501	0.82[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs3775511	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3822103	0.85[CEU][hapmap]
rs4699764	0.80[CEU][hapmap];0.82[CHB][hapmap];0.87[CHD][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs4699765	0.82[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs56174126	0.82[ASN][1000 genomes]
rs6532833	0.81[CEU][hapmap];0.82[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs6532835	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6532836	0.84[AFR][1000 genomes]
rs6814895	0.81[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs6848337	0.89[ASW][hapmap];0.87[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.84[ASN][1000 genomes]
rs6854536	1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs715239	0.87[CHD][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs7676564	0.88[ASW][hapmap];0.87[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7684872	0.85[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7686428	0.83[ASW][hapmap];0.87[CHD][hapmap];0.84[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7687842	0.84[ASN][1000 genomes]
rs7688733	0.84[ASN][1000 genomes]
rs7689566	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs7692416	0.84[CHD][hapmap];1.00[JPT][hapmap]
rs7698065	0.83[ASN][1000 genomes]
rs919132	1.00[ASW][hapmap];0.96[CEU][hapmap];0.82[CHB][hapmap];0.92[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs919133	1.00[ASW][hapmap];0.96[CEU][hapmap];0.82[CHB][hapmap];0.92[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs6849599	KRT71	trans	cerebellum	SCAN
rs6849599	DNAJB14	cis	parietal	SCAN
rs6849599	MAPKSP1	cis	parietal	SCAN
rs6849599	DAPP1	Cis_1M	lymphoblastoid	RTeQTL
rs6849599	NFKB1	cis	cerebellum	SCAN
rs6849599	ADH1B	cis	cerebellum	SCAN

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:100755400-100776000	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:100760200-100777000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr4:100760200-100777200	Weak transcription	Fetal Thymus	thymus
4	chr4:100761000-100801200	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr4:100761800-100771200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr4:100763000-100775600	Weak transcription	Esophagus	oesophagus
7	chr4:100764000-100776800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr4:100767600-100776800	Weak transcription	HMEC	breast
9	chr4:100768400-100799000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr4:100768600-100774800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr4:100768800-100770800	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr4:100768800-100772200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr4:100768800-100772200	Weak transcription	K562	blood
14	chr4:100768800-100774000	Weak transcription	Primary B cells from cord blood	blood
15	chr4:100768800-100776800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr4:100769000-100771800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr4:100769000-100772000	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr4:100769000-100772200	Weak transcription	Duodenum Mucosa	Duodenum
19	chr4:100769000-100773800	Weak transcription	Primary hematopoietic stem cells	blood
20	chr4:100769000-100775200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr4:100769000-100775400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr4:100769000-100775600	Weak transcription	Primary T cells from cord blood	blood
23	chr4:100769000-100777400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr4:100769000-100777800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr4:100769200-100772200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr4:100769600-100771200	Strong transcription	NHEK	skin
27	chr4:100769800-100771200	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr4:100769800-100776800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr4:100770000-100770800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr4:100770000-100771000	Strong transcription	Primary B cells from peripheral blood	blood
31	chr4:100770000-100772000	Strong transcription	Primary monocytes fromperipheralblood	blood
32	chr4:100770200-100771600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr4:100770200-100772000	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr4:100770200-100772000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr4:100770200-100772200	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr4:100770400-100770800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
37	chr4:100770600-100771200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
38	chr4:100770600-100772000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr4:100770600-100772000	Enhancers	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links