Variant report

Variant	rs2793813
Chromosome Location	chr1:179158614-179158615
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:179157213..179159659-chr1:179198340..179199945,2	MCF-7	breast:
2	chr1:179157756..179159376-chr1:179160576..179162882,2	K562	blood:
3	chr1:179157109..179159838-chr1:179172686..179174589,2	K562	blood:

Variant related genes	Relation type
ENSG00000143322	Chromatin interaction

Extended variants
information (count: 97 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs1078872	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs10913690	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs10913692	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.92[YRI][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10913693	0.87[EUR][1000 genomes]
rs10913697	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs12130276	0.86[CHB][hapmap];0.89[CHD][hapmap];0.81[JPT][hapmap]
rs12132572	0.82[ASN][1000 genomes]
rs1325195	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs1763022	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1807916	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1826183	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1856968	0.82[CHB][hapmap];0.98[CHD][hapmap];0.86[JPT][hapmap]
rs2050923	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2066279	0.95[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs2087559	0.85[ASN][1000 genomes]
rs2130576	0.91[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs2171958	0.94[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2171959	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs2306941	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2486998	0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2487563	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2493123	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2493124	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs2636265	0.86[ASN][1000 genomes]
rs2636272	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2636274	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs2636275	0.83[EUR][1000 genomes]
rs2636276	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs2636277	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];0.96[MEX][hapmap];0.96[TSI][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2636278	0.85[GIH][hapmap]
rs2636280	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs2636282	0.89[ASN][1000 genomes]
rs2636291	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2636293	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap]
rs2791936	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2791940	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs2791941	0.90[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs2791944	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2791945	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2793790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.96[TSI][hapmap];0.92[YRI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2793793	0.85[ASN][1000 genomes]
rs2793794	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2793796	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs2793797	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs2793798	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs2793800	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2793801	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2793802	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2793803	0.95[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs2793810	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2793812	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs2793816	0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap]
rs2816166	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.96[TSI][hapmap];0.92[YRI][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2816168	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.85[YRI][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2816183	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs2816184	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.96[TSI][hapmap];0.92[YRI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2816185	0.81[ASN][1000 genomes]
rs2816186	0.95[CHB][hapmap]
rs2816187	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs2816189	0.84[ASN][1000 genomes]
rs2816190	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap]
rs2816191	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2816193	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap]
rs2816197	0.93[ASN][1000 genomes]
rs2816198	0.95[CHB][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs2816199	0.95[CHB][hapmap];0.86[JPT][hapmap];0.93[ASN][1000 genomes]
rs2816200	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2816201	1.00[CHB][hapmap];0.86[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2816202	0.93[ASN][1000 genomes]
rs2816203	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs2816204	0.92[ASN][1000 genomes]
rs2816207	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2816208	0.89[ASN][1000 genomes]
rs2816211	0.86[ASN][1000 genomes]
rs2816212	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2816213	0.86[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs2816214	0.91[CHB][hapmap];0.86[JPT][hapmap];0.89[ASN][1000 genomes]
rs2816218	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3121198	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3122376	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs377785	0.85[ASN][1000 genomes]
rs3813642	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs3813643	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs3829794	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.91[TSI][hapmap];0.92[YRI][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs411266	0.95[CHB][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs413613	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs434283	0.85[ASN][1000 genomes]
rs451088	0.95[CHB][hapmap];0.98[CHD][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs4651013	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs915337	0.95[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs9286921	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9425839	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs965401	0.85[ASN][1000 genomes]
rs9662858	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9726961	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs9728480	0.95[CHB][hapmap];0.98[CHD][hapmap];0.86[JPT][hapmap]
rs9729129	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2793813	FAM20B	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:179117800-179186000	Weak transcription	Fetal Stomach	stomach
2	chr1:179122000-179189400	Weak transcription	Primary B cells from cord blood	blood
3	chr1:179134000-179169000	Weak transcription	Fetal Intestine Small	intestine
4	chr1:179139400-179158800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr1:179139400-179196800	Weak transcription	Pancreas	Pancrea
6	chr1:179144800-179159200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr1:179145000-179159800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr1:179145000-179159800	Weak transcription	Brain Angular Gyrus	brain
9	chr1:179145400-179159000	Weak transcription	Right Ventricle	heart
10	chr1:179146800-179175600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr1:179147600-179160000	Weak transcription	Primary B cells from peripheral blood	blood
12	chr1:179147600-179174600	Weak transcription	Psoas Muscle	Psoas
13	chr1:179148000-179186000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr1:179148400-179185800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr1:179150600-179176000	Weak transcription	HSMM	muscle
16	chr1:179150800-179170600	Weak transcription	Ovary	ovary
17	chr1:179150800-179178000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr1:179150800-179180400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr1:179153600-179160000	Weak transcription	GM12878-XiMat	blood
20	chr1:179153600-179169800	Weak transcription	Small Intestine	intestine
21	chr1:179154000-179171600	Weak transcription	Primary T cells from cord blood	blood
22	chr1:179154200-179159400	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr1:179154400-179159800	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr1:179155600-179160200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr1:179156400-179169200	Weak transcription	Fetal Intestine Large	intestine
26	chr1:179156400-179177800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr1:179156800-179171400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr1:179157400-179159800	Weak transcription	Osteobl	bone
29	chr1:179157400-179164200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr1:179157400-179197400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
31	chr1:179157400-179197600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr1:179157600-179170600	Weak transcription	Lung	lung
33	chr1:179157600-179177800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr1:179157800-179159800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr1:179158000-179160000	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr1:179158600-179158800	Enhancers	K562	blood
37	chr1:179158600-179159000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
38	chr1:179158600-179159400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr1:179158600-179159600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

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