Variant report

Variant	rs73375667
Chromosome Location	chr7:39609442-39609443
allele	A/T
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	chr7:39609369-39609542	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:39606078..39608053-chr7:39609216..39613025,4	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C7orf11-14	chr7:39608975-39609797	NONHSAT120207

Variant related genes	Relation type
ENSG00000227172	TF binding region
YAE1D1	TF binding region
ENSG00000241127	Chromatin interaction

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10232859	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10262131	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10486799	0.87[ASN][1000 genomes]
rs1051162	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11981810	0.97[ASN][1000 genomes]
rs17171592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17171599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17171601	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17713701	0.94[ASN][1000 genomes]
rs17714026	0.90[ASN][1000 genomes]
rs17714061	0.90[ASN][1000 genomes]
rs17770744	0.90[ASN][1000 genomes]
rs2288744	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2876861	0.90[ASN][1000 genomes]
rs2971	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35586222	0.99[ASN][1000 genomes]
rs59818431	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60942815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6947660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6973403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6978059	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73375677	0.97[AFR][1000 genomes]
rs73375682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73375684	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73375686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7790984	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021180	chr7:39424988-39642261	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1026951	chr7:39429036-39642261	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1018430	chr7:39455497-39643569	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv887970	chr7:39587912-39688152	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
5	nsv970467	chr7:39605971-39615006	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39606400-39614000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr7:39606600-39616200	Weak transcription	Spleen	Spleen
3	chr7:39606600-39616600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr7:39606600-39616800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr7:39606600-39618600	Weak transcription	Gastric	stomach
6	chr7:39606600-39619800	Weak transcription	Lung	lung
7	chr7:39607000-39609800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr7:39607000-39611400	Weak transcription	Left Ventricle	heart
9	chr7:39607000-39616800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr7:39607000-39618800	Weak transcription	Right Ventricle	heart
11	chr7:39607000-39619800	Weak transcription	Ovary	ovary
12	chr7:39607000-39623800	Weak transcription	Pancreas	Pancrea
13	chr7:39607000-39631400	Weak transcription	Aorta	Aorta
14	chr7:39607200-39609800	Weak transcription	Brain Anterior Caudate	brain
15	chr7:39607200-39610000	Weak transcription	Primary B cells from peripheral blood	blood
16	chr7:39607200-39610000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
17	chr7:39607200-39610000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr7:39607200-39610200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr7:39607200-39610200	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr7:39607200-39610200	Weak transcription	Fetal Thymus	thymus
21	chr7:39607200-39610200	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr7:39607200-39610200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr7:39607200-39611000	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr7:39607200-39611200	Weak transcription	Liver	Liver
25	chr7:39607200-39611200	Weak transcription	Fetal Kidney	kidney
26	chr7:39607200-39611400	Weak transcription	Brain Angular Gyrus	brain
27	chr7:39607200-39611400	Weak transcription	Brain Cingulate Gyrus	brain
28	chr7:39607200-39611400	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr7:39607200-39611400	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr7:39607200-39612000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr7:39607200-39614000	Weak transcription	Fetal Intestine Small	intestine
32	chr7:39607200-39614200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr7:39607200-39615600	Weak transcription	Psoas Muscle	Psoas
34	chr7:39607200-39616000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr7:39607200-39617200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
36	chr7:39607200-39619200	Weak transcription	Colonic Mucosa	Colon
37	chr7:39607200-39620000	Weak transcription	Rectal Smooth Muscle	rectum
38	chr7:39607200-39620200	Weak transcription	Small Intestine	intestine
39	chr7:39607200-39620200	Weak transcription	Stomach Mucosa	stomach
40	chr7:39607200-39620200	Weak transcription	Thymus	Thymus
41	chr7:39607200-39621000	Weak transcription	Right Atrium	heart
42	chr7:39607200-39623200	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr7:39607200-39628800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr7:39607200-39629000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr7:39607400-39610000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr7:39607400-39611400	Weak transcription	Colon Smooth Muscle	Colon
47	chr7:39607400-39612000	Weak transcription	Brain Hippocampus Middle	brain
48	chr7:39607400-39614600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr7:39607400-39616000	Weak transcription	Pancreatic Islets	Pancreatic Islet
50	chr7:39607600-39609600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links