Variant report

Variant	rs7017868
Chromosome Location	chr8:8873293-8873294
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:8866252..8868654-chr8:8871206..8873425,2	MCF-7	breast:
2	chr8:8859158..8867027-chr8:8867199..8874373,17	K562	blood:

Variant related genes	Relation type
ENSG00000104626	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10217044	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1045527	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[YRI][hapmap];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1045529	0.89[CEU][hapmap]
rs10503389	1.00[CHB][hapmap]
rs11785634	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11785819	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[YRI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11787026	0.93[CEU][hapmap];0.83[YRI][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12114954	0.93[CEU][hapmap];0.83[YRI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13252797	1.00[CEU][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13271797	1.00[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1562211	0.81[CEU][hapmap]
rs17646349	1.00[CHB][hapmap]
rs17646897	1.00[CHB][hapmap]
rs17702602	0.90[CEU][hapmap];0.86[AMR][1000 genomes]
rs2288671	0.85[CEU][hapmap]
rs2409120	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28482034	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28665409	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2915251	0.83[CEU][hapmap]
rs2956244	0.85[CEU][hapmap]
rs2979247	0.83[CEU][hapmap]
rs2979256	0.83[CEU][hapmap]
rs2979265	0.83[CEU][hapmap]
rs34004903	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34251783	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3855900	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3895823	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3989373	0.85[AMR][1000 genomes]
rs4840389	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4841083	0.89[CEU][hapmap]
rs6601279	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6601280	0.92[CEU][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6601281	0.87[AMR][1000 genomes]
rs6601282	0.82[CEU][hapmap]
rs6748	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6981060	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6983877	0.93[CEU][hapmap];0.84[YRI][hapmap];0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6986044	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6987107	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6987558	0.85[CEU][hapmap]
rs7000799	1.00[CHB][hapmap]
rs7005056	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7462373	0.87[AMR][1000 genomes]
rs7814328	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9329175	0.96[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9650616	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv890331	chr8:8093240-8971100	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv917117	chr8:8621658-9313799	Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv831229	chr8:8751523-8926235	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv610205	chr8:8799111-8891644	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	n/a
5	nsv1022468	chr8:8857853-9209167	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
6	nsv539460	chr8:8857853-9209167	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
7	nsv817373	chr8:8857854-9361049	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7017868	THEX1	Cis_1M	lymphoblastoid	RTeQTL
rs7017868	RP11-62H7.2	cis	Thyroid	GTEx

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:8861200-8892400	Weak transcription	Aorta	Aorta
2	chr8:8861400-8907000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr8:8861600-8876200	Weak transcription	Esophagus	oesophagus
4	chr8:8861600-8878600	Weak transcription	Colon Smooth Muscle	Colon
5	chr8:8861600-8885600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr8:8861800-8874800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr8:8861800-8875000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr8:8861800-8875000	Weak transcription	Gastric	stomach
9	chr8:8861800-8877800	Weak transcription	Right Ventricle	heart
10	chr8:8861800-8881800	Weak transcription	Fetal Kidney	kidney
11	chr8:8861800-8883400	Weak transcription	Spleen	Spleen
12	chr8:8861800-8883600	Weak transcription	Small Intestine	intestine
13	chr8:8861800-8885200	Weak transcription	Brain Cingulate Gyrus	brain
14	chr8:8861800-8887200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr8:8861800-8887400	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr8:8861800-8890000	Weak transcription	Stomach Smooth Muscle	stomach
17	chr8:8861800-8891400	Weak transcription	Brain Angular Gyrus	brain
18	chr8:8861800-8891800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr8:8861800-8892000	Weak transcription	Brain Anterior Caudate	brain
20	chr8:8861800-8892200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr8:8861800-8892200	Weak transcription	Ovary	ovary
22	chr8:8861800-8893800	Weak transcription	Fetal Brain Male	brain
23	chr8:8861800-8897800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr8:8861800-8915600	Weak transcription	Pancreas	Pancrea
25	chr8:8862400-8874400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr8:8865400-8878800	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr8:8865400-8886000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr8:8865800-8879600	Strong transcription	Monocytes-CD14+_RO01746	blood
29	chr8:8867000-8874200	Weak transcription	Brain Germinal Matrix	brain
30	chr8:8867800-8874800	Weak transcription	Duodenum Mucosa	Duodenum
31	chr8:8868600-8875000	Weak transcription	Brain Substantia Nigra	brain
32	chr8:8868800-8877000	Strong transcription	Fetal Thymus	thymus
33	chr8:8869000-8880600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr8:8869200-8876400	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr8:8870000-8874600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr8:8870000-8879000	Strong transcription	Primary T helper cells fromperipheralblood	blood
37	chr8:8870200-8874000	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr8:8870200-8874800	Weak transcription	Primary hematopoietic stem cells	blood
39	chr8:8870200-8883600	Weak transcription	Stomach Mucosa	stomach
40	chr8:8870600-8873400	Strong transcription	GM12878-XiMat	blood
41	chr8:8870600-8873800	Weak transcription	HSMM	muscle
42	chr8:8870600-8892200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr8:8870800-8873400	Strong transcription	Left Ventricle	heart
44	chr8:8871000-8873600	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr8:8871200-8874800	Weak transcription	Brain Hippocampus Middle	brain
46	chr8:8871200-8876400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
47	chr8:8871200-8876600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
48	chr8:8871200-8900000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr8:8871400-8873800	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr8:8871400-8874800	Weak transcription	Duodenum Smooth Muscle	Duodenum

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