Variant report

Variant	rs34957239
Chromosome Location	chr12:32621536-32621537
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11052012	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11052014	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11052015	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1566513	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1566514	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2047643	0.87[ASN][1000 genomes]
rs2388991	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34382604	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61927222	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[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	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

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:32594600-32659000	Weak transcription	Esophagus	oesophagus
2	chr12:32601800-32629400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr12:32602600-32636400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr12:32606000-32623600	Weak transcription	Pancreas	Pancrea
5	chr12:32606000-32624600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr12:32606000-32624600	Weak transcription	Gastric	stomach
7	chr12:32606600-32624600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr12:32608600-32629600	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr12:32609400-32623400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr12:32610000-32623200	Weak transcription	Fetal Intestine Large	intestine
11	chr12:32610400-32628400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr12:32610800-32623800	Weak transcription	Duodenum Mucosa	Duodenum
13	chr12:32610800-32624400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr12:32610800-32636400	Weak transcription	NHEK	skin
15	chr12:32610800-32639000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr12:32611200-32629000	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr12:32616000-32638600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr12:32616600-32628200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr12:32616800-32624400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr12:32617000-32629000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr12:32617000-32629200	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr12:32617400-32623200	Weak transcription	Psoas Muscle	Psoas
23	chr12:32619200-32621600	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr12:32619200-32621600	Enhancers	HSMM	muscle
25	chr12:32619200-32621800	Enhancers	Muscle Satellite Cultured Cells	--
26	chr12:32619200-32622000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr12:32619200-32627000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr12:32619400-32621800	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr12:32619400-32622200	Enhancers	Primary B cells from peripheral blood	blood
30	chr12:32619400-32623200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr12:32619400-32624000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr12:32619400-32626200	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr12:32619400-32627600	Weak transcription	Fetal Stomach	stomach
34	chr12:32619600-32621600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr12:32619600-32622200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr12:32619600-32623400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr12:32619600-32623600	Weak transcription	Ovary	ovary
38	chr12:32619600-32623600	Weak transcription	HepG2	liver
39	chr12:32619600-32642000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr12:32620000-32621600	Weak transcription	Fetal Intestine Small	intestine
41	chr12:32620200-32621800	Enhancers	Spleen	Spleen
42	chr12:32620200-32621800	Enhancers	HSMMtube	muscle
43	chr12:32620400-32621600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr12:32620400-32623600	Weak transcription	HMEC	breast
45	chr12:32620600-32621600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr12:32620800-32621800	Enhancers	Fetal Muscle Trunk	muscle
47	chr12:32620800-32622000	Enhancers	Left Ventricle	heart
48	chr12:32620800-32627800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr12:32621000-32621600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr12:32621000-32621600	Enhancers	Primary monocytes fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links