Variant report

Variant	rs9376858
Chromosome Location	chr6:145118792-145118793
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	CEBPB	chr6:145118734-145120030	HCT-116	colon:	n/a	chr6:145119453-145119464
2	CCNT2	chr6:145118767-145118899	K562	blood:	n/a	n/a
3	SP1	chr6:145118758-145120023	HCT-116	colon:	n/a	n/a

Variant related genes	Relation type
UTRN	TF binding region

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10499237	0.83[YRI][hapmap]
rs11546879	0.87[JPT][hapmap]
rs13195905	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13198393	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs13202460	0.89[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs13204600	0.81[AMR][1000 genomes]
rs13208243	0.95[CHB][hapmap];0.87[JPT][hapmap]
rs13210728	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13215581	0.90[CEU][hapmap];0.87[EUR][1000 genomes]
rs13218938	0.81[AMR][1000 genomes]
rs2297844	0.90[CHB][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs2297845	0.95[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2297846	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4131501	0.90[CHB][hapmap];0.82[JPT][hapmap]
rs4143180	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4476850	0.90[CHB][hapmap];0.91[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4631314	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321993	0.80[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9373428	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9373431	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs9376855	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9386082	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9386084	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9390219	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9399506	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9403600	1.00[YRI][hapmap]
rs9403603	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9403610	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9403616	0.81[CHB][hapmap];0.87[JPT][hapmap];0.87[YRI][hapmap];0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:145046000-145122200	Weak transcription	Colonic Mucosa	Colon
2	chr6:145066200-145126200	Weak transcription	Stomach Mucosa	stomach
3	chr6:145084000-145155800	Weak transcription	Right Ventricle	heart
4	chr6:145085400-145119000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:145085800-145134800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:145089600-145138400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr6:145090000-145136800	Weak transcription	Fetal Heart	heart
8	chr6:145091000-145145000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:145093400-145119800	Weak transcription	Fetal Intestine Small	intestine
10	chr6:145094400-145136800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr6:145095000-145119000	Weak transcription	NH-A	brain
12	chr6:145095200-145118800	Weak transcription	GM12878-XiMat	blood
13	chr6:145099600-145165800	Weak transcription	Small Intestine	intestine
14	chr6:145100000-145137600	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr6:145100400-145118800	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr6:145100400-145125600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr6:145100400-145133200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr6:145100400-145145000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
19	chr6:145102200-145123600	Strong transcription	Primary T cells fromperipheralblood	blood
20	chr6:145106400-145119200	Weak transcription	Colon Smooth Muscle	Colon
21	chr6:145107800-145121000	Strong transcription	Primary T helper cells fromperipheralblood	blood
22	chr6:145108400-145120600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr6:145110200-145124200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr6:145110400-145137000	Strong transcription	Primary B cells from cord blood	blood
25	chr6:145110800-145120600	Strong transcription	Primary T helper cells PMA-I stimulated	--
26	chr6:145113600-145119600	Weak transcription	NHEK	skin
27	chr6:145113600-145126400	Weak transcription	Brain Substantia Nigra	brain
28	chr6:145113800-145120000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr6:145114200-145135600	Strong transcription	Primary B cells from peripheral blood	blood
30	chr6:145114600-145120600	Strong transcription	Duodenum Mucosa	Duodenum
31	chr6:145114600-145120800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr6:145114600-145121200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr6:145114800-145119800	Strong transcription	HUES64 Cell Line	embryonic stem cell
34	chr6:145115200-145155000	Weak transcription	Esophagus	oesophagus
35	chr6:145115400-145119000	Weak transcription	Aorta	Aorta
36	chr6:145115400-145119000	Weak transcription	NHLF	lung
37	chr6:145115600-145119000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr6:145115600-145121400	Strong transcription	Primary T cells from cord blood	blood
39	chr6:145115600-145131400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
40	chr6:145115600-145134800	Weak transcription	Lung	lung
41	chr6:145115800-145119000	Weak transcription	HSMMtube	muscle
42	chr6:145115800-145156600	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr6:145116000-145118800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
44	chr6:145116000-145118800	Weak transcription	HSMM	muscle
45	chr6:145116000-145118800	Weak transcription	Osteobl	bone
46	chr6:145116000-145119000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
47	chr6:145116000-145119000	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr6:145116000-145119000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr6:145116000-145119000	Weak transcription	Ovary	ovary
50	chr6:145116000-145119000	Weak transcription	Thymus	Thymus

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