Variant report

Variant	rs7309641
Chromosome Location	chr12:32629932-32629933
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10743792	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10743793	0.99[AFR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10771950	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10771951	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10771952	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10771953	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10771954	0.94[AFR][1000 genomes];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10844208	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10844209	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10844210	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2728715	0.85[CEU][hapmap];0.86[CHB][hapmap];0.91[CHD][hapmap];0.91[JPT][hapmap]
rs4931631	0.80[AFR][1000 genomes]
rs58048246	0.94[AFR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs58632707	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6488058	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7138653	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7297833	0.84[ASW][hapmap];0.81[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap];0.83[MKK][hapmap];0.82[YRI][hapmap];0.85[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs7309975	0.91[AFR][1000 genomes];0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7310262	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7310497	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7312483	0.86[AFR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7312780	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7314407	0.99[AFR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7954700	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7954906	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7954974	0.97[AFR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7962302	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7966919	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7969497	0.80[AFR][1000 genomes]
rs7971819	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7977859	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7979525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531960	chr12:32257285-32775277	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	esv2751096	chr12:32280340-32702784	Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1054191	chr12:32534619-32733066	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv541455	chr12:32534619-32733066	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	esv3342938	chr12:32551041-32716745	Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv898970	chr12:32622097-32680236	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32594600-32659000	Weak transcription	Esophagus	oesophagus
2	chr12:32602600-32636400	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr12:32610800-32636400	Weak transcription	NHEK	skin
4	chr12:32610800-32639000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr12:32616000-32638600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr12:32619600-32642000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr12:32621600-32630400	Weak transcription	Fetal Kidney	kidney
8	chr12:32621600-32631200	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr12:32621600-32636400	Weak transcription	Right Ventricle	heart
10	chr12:32621800-32630600	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr12:32621800-32631200	Weak transcription	HUVEC	blood vessel
12	chr12:32621800-32654000	Weak transcription	Lung	lung
13	chr12:32622000-32631200	Weak transcription	Skeletal Muscle Female	skeletal muscle
14	chr12:32622200-32630400	Weak transcription	Primary B cells from cord blood	blood
15	chr12:32624200-32630600	Weak transcription	Small Intestine	intestine
16	chr12:32624800-32636400	Weak transcription	HMEC	breast
17	chr12:32625000-32631200	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr12:32625000-32631200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr12:32625000-32631600	Weak transcription	Liver	Liver
20	chr12:32625000-32636400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr12:32625000-32655800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr12:32625200-32636400	Weak transcription	Gastric	stomach
23	chr12:32625200-32655200	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr12:32627200-32638600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr12:32627600-32631200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr12:32627800-32630200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr12:32628200-32630200	Enhancers	iPS-15b Cell Line	embryonic stem cell
28	chr12:32628200-32630600	Enhancers	Primary monocytes fromperipheralblood	blood
29	chr12:32628200-32632000	Weak transcription	Rectal Mucosa Donor 29	rectum
30	chr12:32628600-32630400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
31	chr12:32628600-32633000	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr12:32628600-32637200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
33	chr12:32628800-32630000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr12:32629000-32630000	Enhancers	iPS-18 Cell Line	embryonic stem cell
35	chr12:32629000-32630000	Enhancers	Fetal Intestine Small	intestine
36	chr12:32629400-32630600	Enhancers	HSMMtube	muscle
37	chr12:32629400-32630800	Enhancers	Pancreatic Islets	Pancreatic Islet
38	chr12:32629400-32643600	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr12:32629600-32630400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr12:32629600-32630400	Weak transcription	Primary B cells from peripheral blood	blood
41	chr12:32629600-32632000	Enhancers	HSMM	muscle
42	chr12:32629600-32635400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
43	chr12:32629600-32643000	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr12:32629800-32630600	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr12:32629800-32630600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr12:32629800-32630600	Enhancers	Fetal Brain Male	brain
47	chr12:32629800-32631200	Weak transcription	Duodenum Mucosa	Duodenum
48	chr12:32629800-32631200	Weak transcription	Fetal Intestine Large	intestine
49	chr12:32629800-32631600	Weak transcription	Stomach Mucosa	stomach
50	chr12:32629800-32632800	Weak transcription	Pancreas	Pancrea

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