Variant report

Variant	rs6932875
Chromosome Location	chr6:24811706-24811707
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr6:24809223-24813228	K562	blood:	n/a	n/a

Variant related genes	Relation type
FAM65B	TF binding region

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10806993	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10806994	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10946728	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10946729	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10946730	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4282395	0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4360127	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4397218	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4504470	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4509111	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6456636	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6912790	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6931983	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6931984	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6932132	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6932829	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6933295	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7751848	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9358801	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9379691	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9379692	0.89[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9393587	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830609	chr6:24712086-24896647	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
2	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
4	nsv5227	chr6:24774149-24824012	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv508396	chr6:24779648-24846309	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	8 gene(s)	inside rSNPs	diseases
6	esv3526381	chr6:24810723-24819196	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	esv2592028	chr6:24810891-24818558	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	esv998494	chr6:24811395-24818052	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
9	esv3416985	chr6:24811546-24818181	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	esv3526379	chr6:24811690-24818093	Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24777000-24847600	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:24777000-24859600	Weak transcription	Psoas Muscle	Psoas
3	chr6:24788000-24832000	Weak transcription	Brain Substantia Nigra	brain
4	chr6:24788800-24848200	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr6:24789200-24842600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:24798200-24827400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr6:24798200-24841200	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr6:24800000-24843200	Weak transcription	Liver	Liver
9	chr6:24800400-24821800	Weak transcription	Fetal Heart	heart
10	chr6:24800800-24811800	Strong transcription	Primary neutrophils fromperipheralblood	blood
11	chr6:24800800-24811800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr6:24801000-24812000	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr6:24801200-24811800	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr6:24801200-24812000	Strong transcription	Primary B cells from peripheral blood	blood
15	chr6:24801400-24811800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr6:24802000-24811800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr6:24802000-24811800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr6:24802000-24812000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr6:24802400-24811800	Strong transcription	Primary T helper cells PMA-I stimulated	--
20	chr6:24802400-24811800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr6:24802600-24812000	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr6:24802600-24834200	Weak transcription	HSMM	muscle
23	chr6:24802800-24827400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr6:24803400-24817800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr6:24803400-24827400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr6:24804800-24858200	Weak transcription	Gastric	stomach
27	chr6:24805000-24812000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr6:24806200-24842400	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:24808400-24817800	Weak transcription	Dnd41	blood
30	chr6:24808600-24823400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr6:24808800-24845600	Weak transcription	Fetal Stomach	stomach
32	chr6:24809000-24823200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr6:24809800-24820600	Weak transcription	Placenta	Placenta
34	chr6:24809800-24827400	Weak transcription	GM12878-XiMat	blood
35	chr6:24809800-24839200	Weak transcription	H9 Cell Line	embryonic stem cell
36	chr6:24810000-24818600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr6:24810000-24824400	Weak transcription	NHDF-Ad	bronchial
38	chr6:24810000-24827400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr6:24810000-24831600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
40	chr6:24810000-24832600	Weak transcription	Brain Cingulate Gyrus	brain
41	chr6:24810200-24821800	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr6:24810200-24827400	Weak transcription	Brain Germinal Matrix	brain
43	chr6:24810400-24818000	Weak transcription	Fetal Muscle Leg	muscle
44	chr6:24810400-24818600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr6:24810400-24821800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr6:24810400-24821800	Weak transcription	Skeletal Muscle Male	skeletal muscle
47	chr6:24810400-24823200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr6:24810600-24817800	Weak transcription	Primary B cells from cord blood	blood
49	chr6:24810600-24818200	Weak transcription	Thymus	Thymus
50	chr6:24810600-24821800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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