Variant report

Variant	rs6424965
Chromosome Location	chr1:172505731-172505732
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:172503645..172508691-chr1:172518673..172522927,5	MCF-7	breast:
2	chr1:172426591..172429561-chr1:172505407..172507168,2	K562	blood:
3	chr1:172504989..172507379-chr1:172513184..172515018,2	MCF-7	breast:
4	chr1:172505452..172508334-chr1:172537227..172538951,2	K562	blood:
5	chr1:172418269..172420773-chr1:172505670..172507696,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000180999	Chromatin interaction
ENSG00000094975	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10157501	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10752995	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10911830	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs10911833	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10911843	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10911859	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10911862	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10911875	1.00[ASN][1000 genomes]
rs10911920	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10912009	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10912075	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1159378	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12021702	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12025433	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12038654	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12041837	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12070393	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12073872	0.95[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12093274	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12118647	0.81[ASN][1000 genomes]
rs12120798	1.00[CHB][hapmap];0.80[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12123755	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12130435	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12145007	0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs2239816	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2239817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2285143	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2285664	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2472549	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3738736	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3754426	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3830150	0.81[ASN][1000 genomes]
rs6424954	0.82[ASN][1000 genomes]
rs6424955	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[ASN][1000 genomes]
rs6424956	0.81[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6657023	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs6679222	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6688929	0.88[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6691320	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6691528	0.81[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6694111	0.82[ASN][1000 genomes]
rs6697618	0.82[ASN][1000 genomes]
rs6698031	0.82[ASN][1000 genomes]
rs6699802	0.80[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6702420	0.81[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs72710417	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7514814	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7517856	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7519911	0.80[ASN][1000 genomes]
rs7532580	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7542003	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7553020	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9943237	0.91[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs9970543	0.80[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6424965	SUCO	cis	lung	GTEx

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172503200-172506000	Flanking Active TSS	Dnd41	blood
2	chr1:172503200-172509200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:172503400-172505800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
4	chr1:172503400-172511200	Weak transcription	Spleen	Spleen
5	chr1:172503400-172511400	Weak transcription	Gastric	stomach
6	chr1:172503400-172528600	Weak transcription	Aorta	Aorta
7	chr1:172503400-172528600	Weak transcription	Lung	lung
8	chr1:172503600-172506000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
9	chr1:172503600-172506000	Enhancers	Liver	Liver
10	chr1:172503600-172506200	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr1:172503600-172507000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr1:172503600-172507000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr1:172503600-172507000	Weak transcription	Ovary	ovary
14	chr1:172503600-172507000	Weak transcription	Pancreas	Pancrea
15	chr1:172503600-172508200	Enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr1:172503600-172511400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr1:172503600-172511400	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr1:172503600-172513600	Weak transcription	Psoas Muscle	Psoas
19	chr1:172503600-172520200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr1:172503600-172531600	Weak transcription	Esophagus	oesophagus
21	chr1:172503800-172505800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr1:172503800-172507000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr1:172503800-172507000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr1:172503800-172507400	Enhancers	Primary neutrophils fromperipheralblood	blood
25	chr1:172503800-172507600	Enhancers	Colon Smooth Muscle	Colon
26	chr1:172503800-172508600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
27	chr1:172503800-172509400	Weak transcription	HSMMtube	muscle
28	chr1:172503800-172529000	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr1:172503800-172534200	Weak transcription	Skeletal Muscle Male	skeletal muscle
30	chr1:172504000-172505800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
31	chr1:172504000-172505800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr1:172504000-172505800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr1:172504000-172506000	Enhancers	Fetal Lung	lung
34	chr1:172504000-172506600	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr1:172504000-172506600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr1:172504000-172506600	Weak transcription	Right Ventricle	heart
37	chr1:172504000-172507000	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr1:172504000-172507000	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr1:172504000-172511600	Weak transcription	Stomach Smooth Muscle	stomach
40	chr1:172504000-172524400	Weak transcription	HSMM	muscle
41	chr1:172504200-172506000	Enhancers	Stomach Mucosa	stomach
42	chr1:172504200-172506200	Enhancers	Duodenum Mucosa	Duodenum
43	chr1:172504200-172506200	Enhancers	Fetal Heart	heart
44	chr1:172504200-172507200	Enhancers	Small Intestine	intestine
45	chr1:172504200-172508000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
46	chr1:172504200-172515200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
47	chr1:172504200-172527000	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr1:172504400-172507400	Enhancers	NHEK	skin
49	chr1:172504400-172519400	Enhancers	Primary T helper cells fromperipheralblood	blood
50	chr1:172504600-172506000	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet

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