Variant report

Variant	rs12210895
Chromosome Location	chr6:37212791-37212792
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:37211385..37215583-chr6:37273118..37274985,3	K562	blood:
2	chr6:37211625..37213163-chr6:37224210..37227069,2	MCF-7	breast:
3	chr6:37212455..37214067-chr6:37214787..37216601,2	K562	blood:
4	chr6:37211620..37213555-chr6:37282487..37284081,2	MCF-7	breast:
5	chr6:37212231..37214830-chr6:37214873..37217390,2	MCF-7	breast:
6	chr6:37207776..37210309-chr6:37211677..37216303,5	K562	blood:
7	chr6:37211126..37214044-chr6:37224298..37228188,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000172738	Chromatin interaction
ENSG00000065491	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1055461	0.81[MEX][hapmap]
rs11756258	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11758286	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12190959	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12202063	0.83[MKK][hapmap]
rs12208176	0.83[MKK][hapmap]
rs12210793	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs149709	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs149713	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17572320	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs195410	0.82[CHB][hapmap]
rs195760	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs195764	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2010960	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2622893	0.94[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4714051	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9349035	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12210895	TREML2	cis	parietal	SCAN
rs12210895	TREM1	cis	parietal	SCAN

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37205800-37213000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr6:37206000-37213400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr6:37206200-37214800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:37206400-37213000	Weak transcription	Aorta	Aorta
5	chr6:37206800-37213400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr6:37207000-37213600	Enhancers	Fetal Stomach	stomach
7	chr6:37207200-37213600	Enhancers	HUVEC	blood vessel
8	chr6:37207400-37213400	Enhancers	Fetal Heart	heart
9	chr6:37207400-37213400	Enhancers	HMEC	breast
10	chr6:37207600-37214800	Enhancers	Fetal Muscle Leg	muscle
11	chr6:37208000-37212800	Enhancers	Skeletal Muscle Male	skeletal muscle
12	chr6:37208000-37214600	Enhancers	Skeletal Muscle Female	skeletal muscle
13	chr6:37208600-37212800	Weak transcription	GM12878-XiMat	blood
14	chr6:37209000-37213400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr6:37209200-37213400	Enhancers	Sigmoid Colon	Sigmoid Colon
16	chr6:37209400-37214000	Weak transcription	Dnd41	blood
17	chr6:37209800-37213200	Enhancers	Placenta	Placenta
18	chr6:37209800-37213400	Enhancers	Rectal Smooth Muscle	rectum
19	chr6:37209800-37214200	Enhancers	Left Ventricle	heart
20	chr6:37209800-37214400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:37210000-37213400	Enhancers	Colon Smooth Muscle	Colon
22	chr6:37210000-37214400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr6:37210200-37213000	Weak transcription	Esophagus	oesophagus
24	chr6:37210600-37212800	Enhancers	HSMM	muscle
25	chr6:37210600-37214400	Enhancers	HSMMtube	muscle
26	chr6:37210800-37214800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr6:37211000-37213400	Enhancers	Psoas Muscle	Psoas
28	chr6:37211000-37213600	Enhancers	Adipose Nuclei	Adipose
29	chr6:37211000-37214400	Enhancers	Fetal Kidney	kidney
30	chr6:37211000-37214600	Enhancers	NH-A	brain
31	chr6:37211200-37213000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr6:37211200-37213000	Weak transcription	Fetal Thymus	thymus
33	chr6:37211200-37213400	Enhancers	NHEK	skin
34	chr6:37211200-37214400	Enhancers	Primary hematopoietic stem cells short term culture	blood
35	chr6:37211400-37213000	Enhancers	Liver	Liver
36	chr6:37211400-37213200	Enhancers	Rectal Mucosa Donor 29	rectum
37	chr6:37211400-37213600	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr6:37211400-37213800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr6:37211400-37214800	Enhancers	Fetal Muscle Trunk	muscle
40	chr6:37211600-37212800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr6:37211600-37212800	Flanking Active TSS	HepG2	liver
42	chr6:37211600-37213200	Enhancers	Colonic Mucosa	Colon
43	chr6:37211600-37213200	Enhancers	Duodenum Mucosa	Duodenum
44	chr6:37211800-37212800	Weak transcription	Ovary	ovary
45	chr6:37211800-37213000	Weak transcription	Lung	lung
46	chr6:37211800-37213000	Weak transcription	Right Atrium	heart
47	chr6:37211800-37213400	Enhancers	Stomach Mucosa	stomach
48	chr6:37211800-37214000	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr6:37211800-37214200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr6:37211800-37214400	Enhancers	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links