Variant report

Variant	rs3810821
Chromosome Location	chr2:86096832-86096833
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:86096615..86099276-chr2:86111302..86113813,2	MCF-7	breast:
2	chr2:86095415..86096944-chr2:86111486..86113400,2	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10496320	0.89[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10865480	0.90[ASN][1000 genomes]
rs11127003	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11127004	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11127006	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11127007	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11127008	0.95[ASN][1000 genomes]
rs11127009	0.95[ASN][1000 genomes]
rs12614498	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12618873	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12622987	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.96[TSI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12990400	0.90[AMR][1000 genomes]
rs13014421	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13014890	0.84[CEU][hapmap];0.88[CHB][hapmap];1.00[GIH][hapmap];0.91[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13016226	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13033743	0.84[AMR][1000 genomes]
rs1543972	0.84[JPT][hapmap]
rs17026675	0.89[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1878898	0.84[JPT][hapmap]
rs1878904	0.84[JPT][hapmap]
rs1878905	0.95[ASN][1000 genomes]
rs2280312	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2577768	0.84[JPT][hapmap]
rs2577769	0.84[JPT][hapmap]
rs2679710	0.84[JPT][hapmap]
rs2679711	0.84[JPT][hapmap]
rs2679712	0.84[JPT][hapmap]
rs2679713	0.84[JPT][hapmap]
rs3770097	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4832016	0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs4832210	0.89[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs4832217	0.84[JPT][hapmap]
rs56049132	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56083339	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62147537	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62147538	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62147540	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6547636	0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs6547640	0.95[ASN][1000 genomes]
rs6720161	0.89[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6735629	0.84[JPT][hapmap]
rs6750686	0.96[ASN][1000 genomes]
rs6751743	0.95[ASN][1000 genomes]
rs72842060	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72842061	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7558479	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7572209	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7587003	0.95[ASN][1000 genomes]
rs764471	0.84[JPT][hapmap]
rs954176	0.84[JPT][hapmap]
rs959313	0.84[JPT][hapmap]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3810821	C2orf51	cis	cerebellum	SCAN
rs3810821	MRPL35	cis	parietal	SCAN
rs3810821	IMMT	cis	cerebellum	SCAN

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:86066000-86106200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:86067000-86099000	Weak transcription	Gastric	stomach
3	chr2:86075400-86114000	Weak transcription	Aorta	Aorta
4	chr2:86079600-86106200	Weak transcription	Brain Germinal Matrix	brain
5	chr2:86081000-86112400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr2:86081600-86099200	Weak transcription	Left Ventricle	heart
7	chr2:86081600-86100600	Weak transcription	NHDF-Ad	bronchial
8	chr2:86082000-86099000	Weak transcription	Right Ventricle	heart
9	chr2:86086800-86113000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr2:86087400-86101800	Weak transcription	Fetal Brain Female	brain
11	chr2:86088200-86099000	Weak transcription	Adipose Nuclei	Adipose
12	chr2:86088400-86105400	Weak transcription	Osteobl	bone
13	chr2:86088600-86111600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr2:86089000-86102600	Weak transcription	Primary hematopoietic stem cells	blood
15	chr2:86089800-86100000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr2:86089800-86106000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr2:86089800-86106000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr2:86090400-86097400	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr2:86090400-86099800	Weak transcription	Spleen	Spleen
20	chr2:86090400-86102600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr2:86090400-86104600	Weak transcription	Liver	Liver
22	chr2:86090600-86097200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr2:86090600-86109000	Weak transcription	Fetal Stomach	stomach
24	chr2:86090600-86110600	Weak transcription	Fetal Muscle Trunk	muscle
25	chr2:86091400-86101400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr2:86092200-86105200	Weak transcription	Right Atrium	heart
27	chr2:86093200-86097400	Weak transcription	Stomach Smooth Muscle	stomach
28	chr2:86093200-86106200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr2:86093400-86104600	Weak transcription	Ovary	ovary
30	chr2:86093400-86105800	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr2:86093400-86106200	Weak transcription	Duodenum Mucosa	Duodenum
32	chr2:86093400-86106800	Weak transcription	Duodenum Smooth Muscle	Duodenum
33	chr2:86093400-86112400	Weak transcription	Colonic Mucosa	Colon
34	chr2:86093600-86111600	Weak transcription	Colon Smooth Muscle	Colon
35	chr2:86093800-86106000	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr2:86093800-86113000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr2:86094000-86097000	Weak transcription	Placenta	Placenta
38	chr2:86094000-86097600	Strong transcription	Primary B cells from cord blood	blood
39	chr2:86094000-86103200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr2:86094000-86105400	Weak transcription	NH-A	brain
41	chr2:86094400-86101400	Weak transcription	Primary T helper cells fromperipheralblood	blood
42	chr2:86094600-86097600	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr2:86094800-86097200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr2:86094800-86097600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr2:86094800-86098200	Weak transcription	Brain Substantia Nigra	brain
46	chr2:86094800-86101400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
47	chr2:86094800-86105400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr2:86094800-86106000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr2:86095000-86097600	Strong transcription	Thymus	Thymus
50	chr2:86095000-86098000	Strong transcription	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links