Variant report

Variant	rs3737260
Chromosome Location	chr6:145157750-145157751
allele	C/G
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	chr6:145157684-145157835	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
UTRN	TF binding region

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10499236	1.00[CEU][hapmap]
rs1111807	1.00[MEX][hapmap]
rs1111808	1.00[MEX][hapmap]
rs17074162	1.00[CEU][hapmap]
rs17074207	1.00[CEU][hapmap]
rs17074234	1.00[CEU][hapmap]
rs17074289	1.00[EUR][1000 genomes]
rs3924754	1.00[CEU][hapmap]
rs4416688	1.00[CEU][hapmap]
rs7744220	1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7754727	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs9321995	0.86[ASW][hapmap];0.95[LWK][hapmap];1.00[MKK][hapmap];0.93[YRI][hapmap];0.98[AFR][1000 genomes]
rs9376861	0.86[ASW][hapmap];0.95[LWK][hapmap];1.00[MKK][hapmap];0.84[AFR][1000 genomes]
rs9390234	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9390237	0.86[ASW][hapmap];0.87[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes]
rs9399507	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9403615	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv830833	chr6:145001310-145201143	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv886740	chr6:145105354-145199259	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	1 gene(s)	inside rSNPs	diseases
4	nsv886741	chr6:145123326-145165362	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145099600-145165800	Weak transcription	Small Intestine	intestine
2	chr6:145116400-145169000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:145117400-145175200	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr6:145126600-145169400	Weak transcription	Stomach Mucosa	stomach
5	chr6:145130600-145163800	Weak transcription	NHEK	skin
6	chr6:145130800-145172200	Weak transcription	NH-A	brain
7	chr6:145135400-145166000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr6:145137400-145176800	Weak transcription	Fetal Heart	heart
9	chr6:145137800-145175800	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr6:145140200-145161600	Strong transcription	Primary B cells from cord blood	blood
11	chr6:145141400-145172000	Weak transcription	Brain Substantia Nigra	brain
12	chr6:145141400-145175200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr6:145142000-145171400	Weak transcription	HMEC	breast
14	chr6:145143000-145173600	Strong transcription	Primary T cells fromperipheralblood	blood
15	chr6:145145400-145158800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr6:145145400-145167400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr6:145146400-145167400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr6:145148000-145162000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:145150000-145162200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:145150800-145167800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr6:145151800-145164200	Strong transcription	Primary T cells from cord blood	blood
22	chr6:145152000-145162000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:145152800-145162400	Strong transcription	Rectal Mucosa Donor 31	rectum
24	chr6:145153400-145161600	Weak transcription	Brain Anterior Caudate	brain
25	chr6:145153600-145161400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr6:145154200-145164400	Strong transcription	Liver	Liver
27	chr6:145154200-145175200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
28	chr6:145154400-145162000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr6:145154400-145162200	Strong transcription	Primary T killer memory cells from peripheral blood	blood
30	chr6:145154400-145162600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr6:145154400-145165200	Strong transcription	Adipose Nuclei	Adipose
32	chr6:145154400-145173400	Strong transcription	Primary B cells from peripheral blood	blood
33	chr6:145154400-145175000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr6:145154400-145175200	Strong transcription	Dnd41	blood
35	chr6:145154800-145158000	Strong transcription	Fetal Stomach	stomach
36	chr6:145154800-145160600	Strong transcription	HSMMtube	muscle
37	chr6:145154800-145161000	Strong transcription	Aorta	Aorta
38	chr6:145154800-145161000	Strong transcription	Spleen	Spleen
39	chr6:145154800-145161600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr6:145154800-145162400	Strong transcription	Sigmoid Colon	Sigmoid Colon
41	chr6:145154800-145162600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
42	chr6:145154800-145163800	Strong transcription	Fetal Muscle Leg	muscle
43	chr6:145154800-145163800	Strong transcription	HepG2	liver
44	chr6:145154800-145164600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr6:145154800-145165800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr6:145154800-145166000	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr6:145154800-145169200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:145154800-145175200	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr6:145155000-145158600	Strong transcription	Esophagus	oesophagus
50	chr6:145155000-145160400	Strong transcription	Primary hematopoietic stem cells	blood

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