Variant report

Variant	rs10083335
Chromosome Location	chr14:69840109-69840110
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr14:69810899..69813895-chr14:69838816..69841338,2	MCF-7	breast:
2	chr14:69821172..69826934-chr14:69835934..69842143,9	MCF-7	breast:
3	chr14:69837785..69841681-chr14:69853378..69856330,3	MCF-7	breast:
4	chr14:69839397..69841083-chr14:69844631..69847497,2	MCF-7	breast:
5	chr14:69837007..69840981-chr14:69846953..69850536,4	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-GALNTL1-4	chr14:69840092-69840444	NONHSAT037525

No data

Extended variants
information (count: 62 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10129186	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10129720	0.83[AMR][1000 genomes]
rs10138313	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10140273	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10142144	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10143593	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10151691	0.82[YRI][hapmap];0.81[AMR][1000 genomes]
rs11622711	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11623094	0.80[EUR][1000 genomes]
rs11624577	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12147478	0.81[AMR][1000 genomes]
rs12147967	0.81[AMR][1000 genomes]
rs12878175	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12884348	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12884802	0.91[ASN][1000 genomes]
rs12891351	0.80[AMR][1000 genomes]
rs12893282	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12895620	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1455053	0.81[JPT][hapmap]
rs1466255	0.81[AMR][1000 genomes]
rs1958121	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1965878	0.81[AMR][1000 genomes]
rs2085193	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2124191	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2296722	0.92[CEU][hapmap];0.93[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2296724	1.00[CEU][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2296725	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2296727	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28401542	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28451089	0.89[AMR][1000 genomes]
rs28470369	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28661733	0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34405286	0.81[AMR][1000 genomes]
rs34450502	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34731892	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34834622	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34840252	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3759770	0.80[EUR][1000 genomes]
rs3759771	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4899294	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4899295	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4902717	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56137363	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56392460	0.81[AMR][1000 genomes]
rs56953348	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58553067	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs67502261	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71423356	0.91[ASN][1000 genomes]
rs7143858	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7145944	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7147362	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7147710	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7150586	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7159476	0.86[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs7160248	0.81[AMR][1000 genomes]
rs8010767	0.81[AMR][1000 genomes]
rs8012954	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs8014890	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8015317	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8015425	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8016781	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs959242	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10083335	SLC39A9	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:69818600-69842800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr14:69821800-69852400	Weak transcription	Spleen	Spleen
3	chr14:69824200-69864000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr14:69828000-69843000	Weak transcription	GM12878-XiMat	blood
5	chr14:69830000-69847200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr14:69830200-69842400	Weak transcription	NHDF-Ad	bronchial
7	chr14:69830200-69843000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr14:69830600-69841400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr14:69831200-69841600	Weak transcription	Brain Anterior Caudate	brain
10	chr14:69831200-69842200	Weak transcription	Brain Hippocampus Middle	brain
11	chr14:69831200-69842800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr14:69831200-69852400	Weak transcription	Brain Substantia Nigra	brain
13	chr14:69831400-69841200	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr14:69831400-69843200	Weak transcription	Brain Cingulate Gyrus	brain
15	chr14:69831600-69841200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr14:69831600-69843000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr14:69831800-69841600	Weak transcription	Stomach Smooth Muscle	stomach
18	chr14:69832000-69842400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr14:69832400-69842400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr14:69832800-69841200	Weak transcription	Dnd41	blood
21	chr14:69833000-69841000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr14:69833200-69845600	Weak transcription	Fetal Stomach	stomach
23	chr14:69833400-69842200	Weak transcription	Fetal Intestine Large	intestine
24	chr14:69833600-69841200	Weak transcription	Primary T cells from cord blood	blood
25	chr14:69834000-69841400	Weak transcription	HSMM	muscle
26	chr14:69834000-69841800	Weak transcription	Duodenum Mucosa	Duodenum
27	chr14:69834200-69842800	Weak transcription	Lung	lung
28	chr14:69835200-69841400	Weak transcription	Fetal Muscle Trunk	muscle
29	chr14:69835200-69841600	Weak transcription	Fetal Muscle Leg	muscle
30	chr14:69835400-69841600	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr14:69835400-69851800	Weak transcription	Psoas Muscle	Psoas
32	chr14:69835600-69841000	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr14:69835600-69841600	Weak transcription	Primary hematopoietic stem cells	blood
34	chr14:69835600-69851600	Weak transcription	Pancreas	Pancrea
35	chr14:69835800-69843400	Weak transcription	Brain Angular Gyrus	brain
36	chr14:69835800-69852400	Weak transcription	Small Intestine	intestine
37	chr14:69836400-69841600	Weak transcription	Adipose Nuclei	Adipose
38	chr14:69836400-69842200	Weak transcription	Thymus	Thymus
39	chr14:69836800-69843200	Weak transcription	Right Ventricle	heart
40	chr14:69836800-69851600	Weak transcription	Gastric	stomach
41	chr14:69837000-69841400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr14:69837000-69841600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr14:69837000-69841600	Weak transcription	Left Ventricle	heart
44	chr14:69837000-69841800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr14:69837000-69842000	Weak transcription	Osteobl	bone
46	chr14:69837000-69845800	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr14:69837200-69841400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr14:69837200-69841600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr14:69837200-69842200	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr14:69837200-69842200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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