Variant report

Variant	rs35146243
Chromosome Location	chr6:109798412-109798413
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:109561439..109564870-chr6:109795296..109799146,3	K562	blood:
2	chr6:109771720..109774696-chr6:109798404..109799936,2	MCF-7	breast:
3	chr6:109764918..109767515-chr6:109797927..109799949,2	MCF-7	breast:
4	chr6:109783085..109784938-chr6:109797563..109800257,2	K562	blood:
5	chr6:109730983..109732972-chr6:109795668..109798550,2	K562	blood:
6	chr6:109795778..109798503-chr6:109802521..109804573,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000112365	Chromatin interaction
ENSG00000135596	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10457192	0.83[EUR][1000 genomes]
rs10457194	0.83[EUR][1000 genomes]
rs1046943	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1054607	0.92[ASN][1000 genomes]
rs1074765	0.86[EUR][1000 genomes]
rs1074766	0.84[EUR][1000 genomes]
rs10872033	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11153183	0.83[EUR][1000 genomes]
rs11251	0.85[EUR][1000 genomes]
rs11754455	0.83[EUR][1000 genomes]
rs12197180	0.83[EUR][1000 genomes]
rs12198938	0.83[EUR][1000 genomes]
rs12199154	0.83[EUR][1000 genomes]
rs12212476	0.83[EUR][1000 genomes]
rs12214147	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12529733	0.81[EUR][1000 genomes]
rs13201430	0.86[ASN][1000 genomes]
rs13203587	0.83[EUR][1000 genomes]
rs13219952	0.86[EUR][1000 genomes]
rs13220915	0.83[EUR][1000 genomes]
rs1406899	0.83[EUR][1000 genomes]
rs1476387	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1476388	0.81[EUR][1000 genomes]
rs1521907	0.86[EUR][1000 genomes]
rs17070591	0.91[EUR][1000 genomes]
rs1885690	0.86[EUR][1000 genomes]
rs1885691	0.87[EUR][1000 genomes]
rs1998811	0.87[EUR][1000 genomes]
rs2024849	0.83[EUR][1000 genomes]
rs2024850	0.83[EUR][1000 genomes]
rs2024852	0.83[EUR][1000 genomes]
rs2024853	0.83[EUR][1000 genomes]
rs2211288	0.87[EUR][1000 genomes]
rs2236084	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2277113	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2277114	0.83[EUR][1000 genomes]
rs2884037	0.86[EUR][1000 genomes]
rs35260632	0.84[AMR][1000 genomes]
rs3734652	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757230	0.87[EUR][1000 genomes]
rs3757231	0.87[EUR][1000 genomes]
rs3757235	0.88[EUR][1000 genomes]
rs3778474	0.85[EUR][1000 genomes]
rs3778478	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3799842	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3818933	0.86[EUR][1000 genomes]
rs4636056	0.91[EUR][1000 genomes]
rs4945831	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4946967	0.85[EUR][1000 genomes]
rs4946970	0.88[EUR][1000 genomes]
rs4946976	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58644322	0.86[EUR][1000 genomes]
rs59597139	0.86[EUR][1000 genomes]
rs6911838	0.85[ASN][1000 genomes]
rs6914216	0.85[EUR][1000 genomes]
rs6920372	0.87[EUR][1000 genomes]
rs6920712	0.92[ASN][1000 genomes]
rs6939548	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6939953	0.86[EUR][1000 genomes]
rs699700	0.85[EUR][1000 genomes]
rs730089	0.88[EUR][1000 genomes]
rs736830	0.88[EUR][1000 genomes]
rs746794	0.87[EUR][1000 genomes]
rs7748669	0.89[EUR][1000 genomes]
rs7751582	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7754650	0.87[EUR][1000 genomes]
rs7755941	0.85[EUR][1000 genomes]
rs7768973	0.90[EUR][1000 genomes]
rs7773950	0.85[EUR][1000 genomes]
rs8465	0.86[EUR][1000 genomes]
rs910730	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9320286	0.88[EUR][1000 genomes]
rs9398202	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9400284	0.87[ASN][1000 genomes]
rs9400287	0.83[ASN][1000 genomes]
rs9480947	0.88[EUR][1000 genomes]
rs9480949	0.86[EUR][1000 genomes]
rs9480956	0.91[EUR][1000 genomes]
rs9480958	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9487064	0.80[EUR][1000 genomes]
rs9487069	0.85[EUR][1000 genomes]
rs9487070	0.86[EUR][1000 genomes]
rs9487076	0.86[EUR][1000 genomes]
rs9487084	0.87[EUR][1000 genomes]
rs9487085	0.86[EUR][1000 genomes]
rs9487103	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs974034	0.86[EUR][1000 genomes]
rs9791241	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs35146243	C6orf199	Cis_1M	lymphoblastoid	RTeQTL
rs35146243	MICAL1	cis	Artery Tibial	GTEx
rs35146243	SMPD2	cis	Esophagus Mucosa	GTEx
rs35146243	ZBTB24	Cis_1M	lymphoblastoid	RTeQTL
rs35146243	RP11-425D10.10	cis	Skin Sun Exposed Lower leg	GTEx
rs35146243	RP11-425D10.10	cis	Whole Blood	GTEx

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109778800-109798800	Weak transcription	Small Intestine	intestine
2	chr6:109780600-109800400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr6:109781400-109802200	Strong transcription	HSMM	muscle
4	chr6:109782000-109798800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
5	chr6:109782000-109799000	Strong transcription	HUES48 Cell Line	embryonic stem cell
6	chr6:109782400-109798800	Strong transcription	H1 Cell Line	embryonic stem cell
7	chr6:109782400-109798800	Strong transcription	HUES64 Cell Line	embryonic stem cell
8	chr6:109782400-109798800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
9	chr6:109782400-109798800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr6:109782400-109799000	Strong transcription	HUES6 Cell Line	embryonic stem cell
11	chr6:109782400-109799000	Strong transcription	Placenta	Placenta
12	chr6:109782400-109799200	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr6:109782400-109799800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
14	chr6:109782400-109799800	Strong transcription	Monocytes-CD14+_RO01746	blood
15	chr6:109782400-109800000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr6:109782400-109803000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:109782600-109799600	Strong transcription	Fetal Muscle Trunk	muscle
18	chr6:109782600-109800000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:109783200-109799800	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr6:109783600-109799000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr6:109785600-109799200	Strong transcription	Primary hematopoietic stem cells	blood
22	chr6:109785800-109798800	Strong transcription	iPS-15b Cell Line	embryonic stem cell
23	chr6:109786200-109800200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:109786400-109799600	Strong transcription	Fetal Muscle Leg	muscle
25	chr6:109786600-109799200	Strong transcription	Fetal Stomach	stomach
26	chr6:109786800-109799200	Strong transcription	Stomach Smooth Muscle	stomach
27	chr6:109786800-109799800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr6:109787400-109799000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
29	chr6:109787600-109798800	Strong transcription	Skeletal Muscle Female	skeletal muscle
30	chr6:109787800-109798600	Strong transcription	Left Ventricle	heart
31	chr6:109787800-109798800	Weak transcription	Psoas Muscle	Psoas
32	chr6:109787800-109800600	Weak transcription	Fetal Heart	heart
33	chr6:109789200-109798600	Strong transcription	Fetal Intestine Small	intestine
34	chr6:109789200-109799000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr6:109789400-109803200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:109790600-109799000	Strong transcription	Fetal Brain Female	brain
37	chr6:109790800-109799200	Strong transcription	H9 Cell Line	embryonic stem cell
38	chr6:109791400-109798800	Strong transcription	Colonic Mucosa	Colon
39	chr6:109791600-109798600	Strong transcription	Colon Smooth Muscle	Colon
40	chr6:109793600-109798600	Genic enhancers	Primary T helper cells PMA-I stimulated	--
41	chr6:109793600-109799200	Weak transcription	Fetal Brain Male	brain
42	chr6:109794200-109798800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr6:109794400-109798800	Weak transcription	Stomach Mucosa	stomach
44	chr6:109794400-109801200	Weak transcription	HSMMtube	muscle
45	chr6:109795000-109800000	Weak transcription	NH-A	brain
46	chr6:109795200-109798800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:109795200-109798800	Weak transcription	Spleen	Spleen
48	chr6:109795200-109802400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr6:109795800-109799200	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr6:109796000-109798600	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood

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