Variant report

Variant	rs7550702
Chromosome Location	chr1:211529569-211529570
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:211527896..211530358-chr1:211538566..211540580,2	K562	blood:
2	chr1:211528873..211531337-chr1:211538922..211541728,2	K562	blood:

Extended variants
information (count: 52 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs10449313	0.88[EUR][1000 genomes]
rs10494936	0.81[JPT][hapmap];0.91[YRI][hapmap];0.84[ASN][1000 genomes]
rs1055565	0.96[CEU][hapmap];0.81[CHB][hapmap];0.81[CHD][hapmap];0.86[TSI][hapmap];0.80[EUR][1000 genomes]
rs1084981	0.96[CEU][hapmap];0.86[CHB][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10863884	0.82[EUR][1000 genomes]
rs10863888	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.96[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10863895	0.82[EUR][1000 genomes]
rs11119716	0.81[EUR][1000 genomes]
rs11580084	0.92[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];0.88[CHD][hapmap];0.98[GIH][hapmap];0.90[JPT][hapmap];0.86[LWK][hapmap];0.98[TSI][hapmap];0.82[EUR][1000 genomes]
rs11811405	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.83[MEX][hapmap]
rs12027724	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs12116749	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12118279	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.87[MEX][hapmap]
rs12403576	0.81[EUR][1000 genomes]
rs1533217	0.96[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1663522	0.96[CEU][hapmap];0.80[CHB][hapmap];0.88[CHD][hapmap];0.82[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2063569	0.80[EUR][1000 genomes]
rs2292483	0.81[JPT][hapmap];0.86[YRI][hapmap];0.84[ASN][1000 genomes]
rs2798559	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2920908	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2920911	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3002258	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3111257	0.85[CEU][hapmap];0.95[CHB][hapmap];0.84[CHD][hapmap];0.86[GIH][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap]
rs3111258	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.83[MEX][hapmap]
rs3738199	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.86[TSI][hapmap];0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3767377	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs3767378	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[JPT][hapmap];0.82[EUR][1000 genomes]
rs4366377	0.81[EUR][1000 genomes]
rs4406705	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs4951520	0.92[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.83[LWK][hapmap];0.91[MEX][hapmap];0.98[TSI][hapmap];0.87[EUR][1000 genomes]
rs4951522	0.81[JPT][hapmap];0.86[YRI][hapmap];0.84[ASN][1000 genomes]
rs4951523	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4951736	0.82[EUR][1000 genomes]
rs4951741	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4951742	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4951744	0.81[JPT][hapmap];0.86[YRI][hapmap];0.84[ASN][1000 genomes]
rs4951745	0.81[JPT][hapmap];0.91[YRI][hapmap];0.84[ASN][1000 genomes]
rs6667740	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6682599	0.84[ASN][1000 genomes]
rs6684874	0.81[JPT][hapmap];0.86[YRI][hapmap];0.84[ASN][1000 genomes]
rs6689078	0.81[CHB][hapmap]
rs6696938	0.86[EUR][1000 genomes]
rs6700747	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.87[MEX][hapmap]
rs6703361	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7520989	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs7538692	0.87[EUR][1000 genomes]
rs784369	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs784379	0.96[CEU][hapmap];0.86[CHB][hapmap];0.82[CHD][hapmap];0.83[LWK][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs784382	0.96[CEU][hapmap];0.86[CHB][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs784383	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs784385	0.91[CEU][hapmap];0.96[MEX][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs784389	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7550702	C1orf97	cis	multi-tissue	Pritchard
rs7550702	C1orf74	cis	parietal	SCAN

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211505000-211530200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr1:211505800-211529800	Weak transcription	Ovary	ovary
3	chr1:211509800-211544200	Weak transcription	HUVEC	blood vessel
4	chr1:211510600-211555400	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr1:211511600-211533000	Weak transcription	Left Ventricle	heart
6	chr1:211514800-211552200	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr1:211515000-211555000	Weak transcription	Hela-S3	cervix
8	chr1:211515000-211555800	Weak transcription	Esophagus	oesophagus
9	chr1:211515200-211543200	Weak transcription	Colonic Mucosa	Colon
10	chr1:211515400-211548400	Weak transcription	Stomach Mucosa	stomach
11	chr1:211519400-211549000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr1:211519600-211530000	Weak transcription	NH-A	brain
13	chr1:211519800-211532400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr1:211519800-211532400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr1:211519800-211544800	Weak transcription	Fetal Kidney	kidney
16	chr1:211519800-211547400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
17	chr1:211519800-211548600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr1:211520800-211533800	Weak transcription	Colon Smooth Muscle	Colon
19	chr1:211521000-211529800	Weak transcription	HSMMtube	muscle
20	chr1:211521200-211530200	Weak transcription	Brain Anterior Caudate	brain
21	chr1:211521200-211550200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr1:211521600-211555200	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr1:211523600-211542800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:211525000-211555600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr1:211525400-211532400	Weak transcription	A549	lung
26	chr1:211525400-211550200	Weak transcription	NHDF-Ad	bronchial
27	chr1:211525400-211555000	Weak transcription	Fetal Lung	lung
28	chr1:211525600-211548200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr1:211525600-211550200	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr1:211525800-211529600	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr1:211526400-211530000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
32	chr1:211526400-211542200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr1:211526400-211546400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr1:211526600-211531400	Strong transcription	Stomach Smooth Muscle	stomach
35	chr1:211526600-211534800	Strong transcription	Fetal Muscle Trunk	muscle
36	chr1:211526600-211555400	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr1:211526800-211529800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr1:211526800-211530000	Strong transcription	Pancreas	Pancrea
39	chr1:211526800-211550800	Weak transcription	Small Intestine	intestine
40	chr1:211527000-211530000	Enhancers	HepG2	liver
41	chr1:211527000-211530200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr1:211527000-211530600	Strong transcription	Duodenum Smooth Muscle	Duodenum
43	chr1:211527000-211530600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr1:211527000-211531400	Strong transcription	GM12878-XiMat	blood
45	chr1:211527200-211531000	Strong transcription	Rectal Mucosa Donor 31	rectum
46	chr1:211527400-211529800	Weak transcription	Lung	lung
47	chr1:211527400-211529800	Weak transcription	Osteobl	bone
48	chr1:211527400-211535400	Strong transcription	Rectal Mucosa Donor 29	rectum
49	chr1:211527400-211550400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr1:211527600-211529800	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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