Variant report

Variant	rs73213970
Chromosome Location	chr3:196154274-196154275
allele	C/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	chr3:196154273-196154471	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:196150524..196154705-chr3:196157628..196161490,4	K562	blood:

Variant related genes	Relation type
UBXN7-AS1	TF binding region
ENSG00000225822	Chromatin interaction
ENSG00000163960	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10881567	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11185537	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12488531	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12638961	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13073879	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13089205	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28549737	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28594421	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs35561509	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4133244	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4290832	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4579046	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6583303	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7373049	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7373103	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7373385	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7374841	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7624107	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9821735	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9839978	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9841810	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9847223	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9874783	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv997797	chr3:195658360-196212958	Weak transcription Flanking Active TSS Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv1003550	chr3:195885340-196159824	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
3	nsv536893	chr3:195885340-196159824	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	49 gene(s)	inside rSNPs	diseases
4	nsv1003194	chr3:195960270-196342423	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
5	nsv536894	chr3:195960270-196342423	Flanking Active TSS Weak transcription Enhancers Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
6	nsv878182	chr3:195974181-196228360	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	45 gene(s)	inside rSNPs	diseases
7	nsv1003764	chr3:196028141-196190687	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
8	nsv536895	chr3:196028141-196190687	Genic enhancers Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
9	esv1844755	chr3:196057616-196190350	Flanking Active TSS Weak transcription Strong transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
10	nsv469831	chr3:196071603-196235225	Weak transcription ZNF genes & repeats Enhancers Genic enhancers Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
11	nsv482542	chr3:196071603-196235225	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
12	nsv878183	chr3:196072442-196181228	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
13	nsv1003066	chr3:196098763-196414159	Flanking Active TSS Strong transcription Weak transcription Active TSS Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
14	esv2752687	chr3:196147690-196286690	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
15	nsv948681	chr3:196148055-197007546	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:196118600-196157400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
2	chr3:196125200-196157400	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr3:196127600-196157400	Weak transcription	HUVEC	blood vessel
4	chr3:196132600-196157400	Weak transcription	Liver	Liver
5	chr3:196134000-196154400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:196134200-196154600	Weak transcription	Dnd41	blood
7	chr3:196134200-196157400	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr3:196134600-196157800	Weak transcription	A549	lung
9	chr3:196136600-196156800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr3:196138200-196156600	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr3:196138200-196157200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr3:196141600-196157400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr3:196141600-196158000	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr3:196142000-196157400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:196143600-196157400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:196145600-196154400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr3:196145800-196157400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr3:196147200-196157400	Weak transcription	Primary neutrophils fromperipheralblood	blood
19	chr3:196147800-196158000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr3:196148200-196154600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr3:196148200-196156600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:196148200-196157800	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr3:196148600-196157400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr3:196149800-196158000	Weak transcription	Placenta	Placenta
25	chr3:196150200-196154400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:196150200-196156800	Weak transcription	Fetal Brain Male	brain
27	chr3:196150200-196157400	Weak transcription	Duodenum Mucosa	Duodenum
28	chr3:196150400-196154400	Weak transcription	Adipose Nuclei	Adipose
29	chr3:196150400-196154400	Weak transcription	Fetal Brain Female	brain
30	chr3:196150400-196156200	Weak transcription	GM12878-XiMat	blood
31	chr3:196150400-196156600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr3:196150400-196156600	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr3:196150400-196157400	Weak transcription	Osteobl	bone
34	chr3:196150400-196157800	Weak transcription	NH-A	brain
35	chr3:196150400-196158200	Weak transcription	Aorta	Aorta
36	chr3:196150400-196158200	Weak transcription	Colonic Mucosa	Colon
37	chr3:196150600-196154600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr3:196150600-196156600	Weak transcription	Brain Germinal Matrix	brain
39	chr3:196150600-196156800	Weak transcription	HepG2	liver
40	chr3:196150600-196157200	Weak transcription	Pancreas	Pancrea
41	chr3:196150600-196157400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr3:196150600-196157400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr3:196150600-196157400	Weak transcription	Brain Cingulate Gyrus	brain
44	chr3:196150600-196157400	Weak transcription	Colon Smooth Muscle	Colon
45	chr3:196150600-196157400	Weak transcription	Fetal Lung	lung
46	chr3:196150600-196157400	Weak transcription	Ovary	ovary
47	chr3:196150600-196157400	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr3:196150600-196157400	Weak transcription	Rectal Smooth Muscle	rectum
49	chr3:196150600-196157400	Weak transcription	Right Atrium	heart
50	chr3:196150600-196157400	Weak transcription	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links