Variant report

Variant	rs6959475
Chromosome Location	chr7:101764329-101764330
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:101458132..101460298-chr7:101762998..101764899,2	MCF-7	breast:
2	chr7:101757440..101759517-chr7:101762519..101765304,2	K562	blood:
3	chr7:101762618..101764920-chr7:101767329..101769276,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000257923	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10231704	1.00[CHB][hapmap]
rs10243429	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10245459	1.00[CHB][hapmap]
rs10246310	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs10249739	1.00[CHB][hapmap]
rs10252737	1.00[CHB][hapmap]
rs10259603	1.00[CHB][hapmap]
rs10259857	0.95[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10261132	1.00[CHB][hapmap]
rs10271376	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10271680	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10277680	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10953357	1.00[CHB][hapmap]
rs11769397	1.00[CHB][hapmap]
rs11975153	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11975663	1.00[CHB][hapmap]
rs12537526	1.00[CHB][hapmap]
rs12538286	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12538988	0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12539349	1.00[CHB][hapmap]
rs12539846	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1734886	0.87[ASN][1000 genomes]
rs17408612	1.00[CHB][hapmap]
rs17408640	1.00[CHB][hapmap]
rs17409879	1.00[CHB][hapmap]
rs17410356	1.00[CHB][hapmap]
rs17487076	1.00[CHB][hapmap]
rs17487672	1.00[CHB][hapmap]
rs17495148	1.00[CHB][hapmap]
rs17496657	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17498402	0.80[EUR][1000 genomes]
rs201448	1.00[CHD][hapmap]
rs2268030	0.81[EUR][1000 genomes]
rs28401723	1.00[ASN][1000 genomes]
rs28603325	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs382934	0.84[CEU][hapmap]
rs55851631	0.80[ASN][1000 genomes]
rs59220714	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6465843	1.00[CHB][hapmap]
rs6465850	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67245174	0.86[ASN][1000 genomes]
rs6973312	1.00[CHB][hapmap]
rs73187803	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73187816	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73187849	0.80[EUR][1000 genomes]
rs73187850	0.80[EUR][1000 genomes]
rs7776498	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7780631	1.00[CHB][hapmap]
rs7797764	1.00[CHB][hapmap]
rs7798358	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7801220	0.85[CEU][hapmap]
rs7805379	1.00[CHB][hapmap]
rs7807344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9655774	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6959475	TTC31	trans	cerebellum	SCAN
rs6959475	SH2B2	cis	cerebellum	SCAN

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:101708200-101765000	Weak transcription	Small Intestine	intestine
2	chr7:101741000-101765000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr7:101741600-101764800	Weak transcription	Stomach Mucosa	stomach
4	chr7:101744600-101765000	Weak transcription	HUVEC	blood vessel
5	chr7:101746000-101765000	Weak transcription	HMEC	breast
6	chr7:101748600-101765000	Weak transcription	NHEK	skin
7	chr7:101750200-101771000	Weak transcription	Fetal Heart	heart
8	chr7:101751600-101764800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr7:101754600-101765000	Strong transcription	Fetal Intestine Small	intestine
10	chr7:101755200-101765000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr7:101755200-101787000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr7:101755400-101765000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr7:101755400-101773200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr7:101759200-101765000	Weak transcription	Psoas Muscle	Psoas
15	chr7:101759400-101764800	Weak transcription	Esophagus	oesophagus
16	chr7:101759400-101770200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
17	chr7:101759600-101764800	Weak transcription	Primary hematopoietic stem cells	blood
18	chr7:101759600-101765000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr7:101759800-101764800	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr7:101759800-101764800	Weak transcription	K562	blood
21	chr7:101759800-101765000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr7:101759800-101765000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr7:101759800-101765000	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr7:101759800-101768400	Weak transcription	HUES64 Cell Line	embryonic stem cell
25	chr7:101760200-101764600	Weak transcription	Colonic Mucosa	Colon
26	chr7:101760200-101764800	Weak transcription	Pancreas	Pancrea
27	chr7:101760200-101765000	Weak transcription	Primary B cells from peripheral blood	blood
28	chr7:101760200-101765000	Weak transcription	Primary T helper cells PMA-I stimulated	--
29	chr7:101760200-101765000	Weak transcription	Adipose Nuclei	Adipose
30	chr7:101760200-101769600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr7:101760200-101796000	Weak transcription	Rectal Smooth Muscle	rectum
32	chr7:101760400-101764800	Weak transcription	Hela-S3	cervix
33	chr7:101760400-101765000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr7:101760400-101765000	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr7:101760400-101765000	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr7:101760400-101765200	Weak transcription	Primary T helper cells fromperipheralblood	blood
37	chr7:101760400-101768000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr7:101760400-101768400	Weak transcription	Aorta	Aorta
39	chr7:101760400-101788600	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr7:101760400-101789400	Weak transcription	Right Ventricle	heart
41	chr7:101760400-101795800	Weak transcription	Left Ventricle	heart
42	chr7:101760600-101765000	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr7:101760600-101765400	Enhancers	Fetal Muscle Trunk	muscle
44	chr7:101760800-101766400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr7:101761000-101764400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr7:101761000-101795600	Weak transcription	Colon Smooth Muscle	Colon
47	chr7:101761200-101764600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr7:101761200-101764600	Weak transcription	Placenta	Placenta
49	chr7:101761200-101764800	Weak transcription	Liver	Liver
50	chr7:101761200-101764800	Weak transcription	Lung	lung

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