Variant report

Variant	rs3759770
Chromosome Location	chr14:69867080-69867081
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	chr14:69658868..69661377-chr14:69866532..69868525,2	MCF-7	breast:
2	chr14:69865072..69867138-chr14:69919938..69922880,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000029364	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10083335	0.80[EUR][1000 genomes]
rs10129186	0.82[CEU][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10129720	0.96[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10138313	0.82[CEU][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs10140273	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10142144	0.81[CEU][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10143593	0.82[CEU][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs10143710	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10151691	0.81[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];0.81[GIH][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes]
rs11623094	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[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11624577	0.82[CEU][hapmap];0.91[TSI][hapmap];0.82[EUR][1000 genomes]
rs12147478	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12147967	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12436172	0.84[CEU][hapmap];0.89[CHB][hapmap];0.91[YRI][hapmap]
rs12878175	0.82[CEU][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes]
rs12891351	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12893282	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12895620	0.82[CEU][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1466255	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1958121	0.82[CEU][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes]
rs1965878	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2085193	0.81[EUR][1000 genomes]
rs2100489	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2124191	0.82[CEU][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2124192	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2296722	0.91[TSI][hapmap];0.81[EUR][1000 genomes]
rs2296724	0.87[TSI][hapmap]
rs28401542	0.81[EUR][1000 genomes]
rs28470369	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs28661733	0.82[EUR][1000 genomes]
rs28879441	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34405286	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34450502	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs34840252	0.82[EUR][1000 genomes]
rs3759771	0.82[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4899295	0.82[CEU][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs4902717	0.82[CEU][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4902719	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56392460	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs67502261	0.82[EUR][1000 genomes]
rs7143858	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7145944	0.82[CEU][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes]
rs7147362	0.81[EUR][1000 genomes]
rs7147710	0.82[CEU][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes]
rs7150586	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7160248	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs8010767	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8012954	0.82[CEU][hapmap]
rs8014890	0.82[CEU][hapmap];0.91[TSI][hapmap]
rs8015317	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8015425	0.80[EUR][1000 genomes]
rs8016781	0.81[CEU][hapmap];0.82[EUR][1000 genomes]
rs8020817	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs959242	0.87[TSI][hapmap];0.82[EUR][1000 genomes]
rs9796392	0.85[AMR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3759770	SLC39A9	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69863600-69867800	Active TSS	Right Atrium	heart
2	chr14:69863600-69868200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr14:69863600-69869200	Active TSS	K562	blood
4	chr14:69863800-69867200	Active TSS	H9 Cell Line	embryonic stem cell
5	chr14:69863800-69867600	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr14:69863800-69867800	Active TSS	iPS-20b Cell Line	embryonic stem cell
7	chr14:69863800-69869000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
8	chr14:69864000-69867800	Active TSS	iPS-15b Cell Line	embryonic stem cell
9	chr14:69864000-69868200	Active TSS	ES-I3 Cell Line	embryonic stem cell
10	chr14:69864200-69867200	Active TSS	NHLF	lung
11	chr14:69864200-69867400	Active TSS	Fetal Intestine Large	intestine
12	chr14:69864200-69867600	Active TSS	Colonic Mucosa	Colon
13	chr14:69864200-69868000	Active TSS	H1 Cell Line	embryonic stem cell
14	chr14:69864200-69868200	Active TSS	Pancreas	Pancrea
15	chr14:69864200-69868400	Active TSS	HUES48 Cell Line	embryonic stem cell
16	chr14:69865600-69867200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
17	chr14:69865600-69867600	Flanking Active TSS	Primary T cells from cord blood	blood
18	chr14:69865600-69868000	Flanking Active TSS	Adipose Nuclei	Adipose
19	chr14:69865800-69867200	Flanking Active TSS	Liver	Liver
20	chr14:69865800-69867200	Flanking Active TSS	Brain Cingulate Gyrus	brain
21	chr14:69865800-69867200	Flanking Active TSS	Brain Hippocampus Middle	brain
22	chr14:69865800-69867400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr14:69865800-69867400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
24	chr14:69865800-69867400	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
25	chr14:69865800-69867400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
26	chr14:69865800-69867400	Flanking Active TSS	Stomach Smooth Muscle	stomach
27	chr14:69865800-69867600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr14:69865800-69867600	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
29	chr14:69865800-69867600	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
30	chr14:69865800-69867600	Flanking Active TSS	Brain Angular Gyrus	brain
31	chr14:69865800-69867600	Flanking Active TSS	Brain Anterior Caudate	brain
32	chr14:69865800-69867600	Flanking Active TSS	Brain Inferior Temporal Lobe	brain
33	chr14:69865800-69868000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr14:69865800-69868000	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
35	chr14:69865800-69868000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
36	chr14:69865800-69868200	Flanking Active TSS	NH-A	brain
37	chr14:69865800-69868400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
38	chr14:69865800-69868800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr14:69865800-69868800	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr14:69866000-69867400	Flanking Active TSS	Fetal Heart	heart
41	chr14:69866000-69867400	Flanking Active TSS	Rectal Smooth Muscle	rectum
42	chr14:69866000-69867800	Flanking Active TSS	Fetal Stomach	stomach
43	chr14:69866000-69868000	Enhancers	Spleen	Spleen
44	chr14:69866000-69868200	Flanking Active TSS	HUVEC	blood vessel
45	chr14:69866000-69868400	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
46	chr14:69866000-69869400	Flanking Active TSS	Dnd41	blood
47	chr14:69866200-69867200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr14:69866200-69867400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr14:69866200-69868000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr14:69866200-69868000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood

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