Variant report

Variant	rs214057
Chromosome Location	chr6:25531133-25531134
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs1028318	0.87[CHD][hapmap];0.85[GIH][hapmap]
rs10946785	0.85[GIH][hapmap]
rs118855	0.89[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1206523	0.89[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs212934	0.95[JPT][hapmap]
rs214048	0.89[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs214051	0.81[AMR][1000 genomes]
rs214053	0.92[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs214054	0.89[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs214056	0.92[CEU][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs214058	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs214059	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs214060	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs214065	0.82[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs368638	0.89[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3788991	0.83[CHD][hapmap]
rs3804118	0.85[GIH][hapmap]
rs3804123	0.83[JPT][hapmap]
rs381300	0.82[ASN][1000 genomes]
rs394201	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs431659	0.89[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs435759	0.82[ASN][1000 genomes]
rs441460	0.89[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs452447	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs454095	0.87[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6903765	0.85[GIH][hapmap]
rs6908390	0.85[GIH][hapmap]
rs6913974	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs742132	0.82[GIH][hapmap]
rs9379771	0.95[JPT][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs214057	HIST1H2BE	cis	parietal	SCAN
rs214057	PRSS16	cis	parietal	SCAN
rs214057	SLC17A1	cis	cerebellum	SCAN

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25456400-25537000	Weak transcription	Esophagus	oesophagus
2	chr6:25463200-25532200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr6:25471600-25597200	Weak transcription	Gastric	stomach
4	chr6:25483000-25532200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr6:25490400-25543000	Weak transcription	Hela-S3	cervix
6	chr6:25494000-25551400	Weak transcription	Left Ventricle	heart
7	chr6:25506600-25537400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr6:25509800-25548600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr6:25511600-25531400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
10	chr6:25514200-25542600	Weak transcription	Adipose Nuclei	Adipose
11	chr6:25514200-25558400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr6:25514400-25541600	Weak transcription	Colonic Mucosa	Colon
13	chr6:25514800-25537800	Weak transcription	Primary B cells from peripheral blood	blood
14	chr6:25515000-25538600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr6:25516200-25547000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:25516200-25556800	Weak transcription	Pancreas	Pancrea
17	chr6:25516400-25556800	Weak transcription	Fetal Stomach	stomach
18	chr6:25516600-25539600	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr6:25516600-25544000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr6:25516800-25537200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:25516800-25545200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr6:25516800-25606400	Weak transcription	Lung	lung
23	chr6:25517000-25542200	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr6:25517400-25540200	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr6:25517400-25542200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr6:25519000-25540000	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr6:25519000-25540000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr6:25519800-25543200	Weak transcription	Primary hematopoietic stem cells	blood
29	chr6:25519800-25556800	Weak transcription	Ovary	ovary
30	chr6:25521200-25533200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr6:25521600-25533000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr6:25521600-25536800	Weak transcription	Brain Anterior Caudate	brain
33	chr6:25521600-25541000	Weak transcription	HSMMtube	muscle
34	chr6:25521600-25541000	Weak transcription	NHEK	skin
35	chr6:25522200-25545400	Weak transcription	Small Intestine	intestine
36	chr6:25522400-25538600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr6:25522400-25588600	Weak transcription	HMEC	breast
38	chr6:25522600-25537400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr6:25522800-25540000	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr6:25523000-25535000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr6:25523000-25550600	Weak transcription	Primary T helper cells PMA-I stimulated	--
42	chr6:25523000-25577200	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr6:25523200-25532800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr6:25523200-25535200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr6:25523200-25535200	Weak transcription	Fetal Lung	lung
46	chr6:25523200-25538000	Weak transcription	Thymus	Thymus
47	chr6:25523200-25541400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr6:25523400-25533400	Weak transcription	Fetal Intestine Large	intestine
49	chr6:25523400-25538400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
50	chr6:25523400-25544200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links