Variant report

Variant	rs6780205
Chromosome Location	chr3:156967838-156967839
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 127 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10936061	0.92[EUR][1000 genomes]
rs10936062	0.92[EUR][1000 genomes]
rs10936063	0.91[EUR][1000 genomes]
rs10936064	0.91[EUR][1000 genomes]
rs10936065	0.91[EUR][1000 genomes]
rs10936066	0.91[EUR][1000 genomes]
rs10936067	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10936068	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10936069	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10936074	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10936075	0.89[EUR][1000 genomes]
rs1157738	0.85[AMR][1000 genomes]
rs12488480	0.93[EUR][1000 genomes]
rs12489453	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12489799	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12490836	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12492801	0.92[EUR][1000 genomes]
rs12496051	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12496111	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12497891	0.93[EUR][1000 genomes]
rs12629589	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12630209	0.91[EUR][1000 genomes]
rs12632525	0.86[ASN][1000 genomes]
rs12633429	0.89[EUR][1000 genomes]
rs12634818	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12635088	0.92[EUR][1000 genomes]
rs12636125	0.89[EUR][1000 genomes]
rs1403106	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1403108	0.81[AMR][1000 genomes]
rs1568611	0.82[AMR][1000 genomes]
rs16827318	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16827322	0.85[AMR][1000 genomes]
rs16827352	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17552941	0.92[EUR][1000 genomes]
rs1995304	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2321740	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2874616	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs35910014	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3935750	0.93[EUR][1000 genomes]
rs41272613	0.92[EUR][1000 genomes]
rs4371471	0.90[EUR][1000 genomes]
rs4383467	0.91[EUR][1000 genomes]
rs4413278	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4608646	0.91[EUR][1000 genomes]
rs4679788	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4679789	0.82[EUR][1000 genomes]
rs4680340	0.87[EUR][1000 genomes]
rs4680343	0.93[EUR][1000 genomes]
rs4680345	0.93[EUR][1000 genomes]
rs4680347	0.85[AMR][1000 genomes]
rs4680349	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4680352	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs5003893	0.92[EUR][1000 genomes]
rs55828309	0.93[EUR][1000 genomes]
rs55835412	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs55949516	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55953639	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs56078410	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56143236	0.82[AMR][1000 genomes]
rs56150358	0.86[EUR][1000 genomes]
rs56263456	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57322659	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57511361	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59210914	0.89[EUR][1000 genomes]
rs59279023	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs59485606	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs59865540	0.81[EUR][1000 genomes]
rs60153077	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61149035	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62274129	0.88[EUR][1000 genomes]
rs62274155	0.91[EUR][1000 genomes]
rs62274156	0.91[EUR][1000 genomes]
rs62274159	0.93[EUR][1000 genomes]
rs62276460	0.93[EUR][1000 genomes]
rs62276461	0.93[EUR][1000 genomes]
rs62276462	0.93[EUR][1000 genomes]
rs62276465	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62276470	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs62276471	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62276474	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276475	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276479	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs62276480	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276488	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62276489	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs62276490	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62276491	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62276495	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62276496	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62276497	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs62276501	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62276502	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62276504	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62276505	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6441115	0.92[EUR][1000 genomes]
rs6441116	0.92[EUR][1000 genomes]
rs6441119	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6768052	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6768074	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6781682	0.93[EUR][1000 genomes]
rs6792479	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6799567	0.81[AMR][1000 genomes]
rs6805989	0.93[EUR][1000 genomes]
rs6806232	0.93[EUR][1000 genomes]
rs6809307	0.87[EUR][1000 genomes]
rs73154633	0.90[EUR][1000 genomes]
rs73154649	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73154657	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73154659	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73154671	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73154682	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73873800	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7610214	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7619892	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7621912	0.93[EUR][1000 genomes]
rs7626589	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7633004	0.92[EUR][1000 genomes]
rs7648599	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7649737	0.82[AMR][1000 genomes]
rs7652298	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8180056	0.92[EUR][1000 genomes]
rs8180057	0.92[EUR][1000 genomes]
rs8925	0.90[EUR][1000 genomes]
rs924516	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs949854	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829766	chr3:156811536-157020551	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
2	nsv877687	chr3:156924793-157044184	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156958400-156971200	Weak transcription	Primary B cells from cord blood	blood
2	chr3:156964800-156968600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr3:156965000-156968600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr3:156965200-156968200	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:156965200-156968600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:156965600-156968000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr3:156965800-156969200	Enhancers	Left Ventricle	heart
8	chr3:156966200-156968000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
9	chr3:156966200-156968000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr3:156966400-156968000	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr3:156966400-156968200	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr3:156966400-156968600	Enhancers	HUES64 Cell Line	embryonic stem cell
13	chr3:156966600-156968000	Enhancers	ES-I3 Cell Line	embryonic stem cell
14	chr3:156966600-156968000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:156966600-156968000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:156966600-156968000	Enhancers	H9 Cell Line	embryonic stem cell
17	chr3:156966600-156968000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr3:156966600-156968200	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr3:156966600-156968200	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr3:156966800-156968000	Enhancers	Right Ventricle	heart
21	chr3:156967000-156968000	Enhancers	Brain Cingulate Gyrus	brain
22	chr3:156967000-156969000	Weak transcription	Esophagus	oesophagus
23	chr3:156967000-156973400	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr3:156967000-156979000	Weak transcription	HSMMtube	muscle
25	chr3:156967200-156969600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr3:156967200-156969600	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr3:156967200-156970000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr3:156967200-156974600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr3:156967200-156974600	Weak transcription	Osteobl	bone
30	chr3:156967200-156975000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr3:156967200-156982000	Weak transcription	Lung	lung
32	chr3:156967200-156989000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr3:156967200-157000000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr3:156967200-157000000	Weak transcription	NH-A	brain
35	chr3:156967200-157007800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr3:156967600-156968000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr3:156967600-156968000	Enhancers	Gastric	stomach
38	chr3:156967600-156969800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr3:156967600-156970200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr3:156967600-156973000	Weak transcription	HUVEC	blood vessel
41	chr3:156967800-156968000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
42	chr3:156967800-156968000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr3:156967800-156968000	Flanking Active TSS	Fetal Heart	heart
44	chr3:156967800-156968000	Enhancers	Right Atrium	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links