Variant report

Variant	rs7295258
Chromosome Location	chr12:123417958-123417959
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:123415535..123420026-chr12:123422545..123426280,4	K562	blood:

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10219462	0.81[AFR][1000 genomes]
rs11060932	0.82[AFR][1000 genomes]
rs11060997	0.81[AFR][1000 genomes]
rs11060999	0.81[AFR][1000 genomes]
rs12229884	0.81[AFR][1000 genomes]
rs12311043	0.81[AFR][1000 genomes]
rs34010146	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55646110	1.00[AMR][1000 genomes]
rs55796417	0.85[AMR][1000 genomes]
rs55813219	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55830208	0.85[AMR][1000 genomes]
rs55939945	1.00[AMR][1000 genomes]
rs55951195	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56020503	0.85[AMR][1000 genomes]
rs56150478	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs56288804	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs56725866	0.85[AMR][1000 genomes]
rs57110420	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57258703	1.00[AMR][1000 genomes]
rs57310784	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs57863319	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs58025094	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58462666	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59002329	0.85[AFR][1000 genomes]
rs59081274	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59211448	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs59379557	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs59526938	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60341839	0.85[AMR][1000 genomes]
rs60739634	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60809882	0.85[AMR][1000 genomes]
rs60888713	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60920158	0.85[AMR][1000 genomes]
rs60987910	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs61061591	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61377358	0.85[AMR][1000 genomes]
rs61516893	0.85[AMR][1000 genomes]
rs61546241	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61592192	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs61677786	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406966	0.85[AMR][1000 genomes]
rs73406997	0.85[AMR][1000 genomes]
rs73408803	0.85[AMR][1000 genomes]
rs73408810	0.85[AMR][1000 genomes]
rs73408812	0.85[AMR][1000 genomes]
rs73408818	1.00[AMR][1000 genomes]
rs73408820	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408832	1.00[AMR][1000 genomes]
rs73408835	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408838	0.85[AMR][1000 genomes]
rs73408846	0.85[AMR][1000 genomes]
rs73408862	0.85[AFR][1000 genomes]
rs73408863	0.85[AFR][1000 genomes]
rs73408887	0.85[AMR][1000 genomes]
rs73408890	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408892	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408893	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408894	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73408899	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411006	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411009	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411011	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411014	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411015	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411017	0.85[AMR][1000 genomes]
rs73411018	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411027	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73411033	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73411041	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73411043	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs73411057	0.85[AMR][1000 genomes]
rs73411058	0.85[AMR][1000 genomes]
rs73411063	0.85[AMR][1000 genomes]
rs752164	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3388790	chr12:123275902-123655103	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
2	nsv899572	chr12:123292503-123477311	Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv899573	chr12:123312051-123528405	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
4	nsv517200	chr12:123312051-123654498	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	nsv899576	chr12:123335527-123528405	Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
6	nsv832532	chr12:123395927-123573137	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
7	nsv832533	chr12:123395927-123589290	Enhancers Genic enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
8	nsv427924	chr12:123412172-123722059	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	78 gene(s)	inside rSNPs	diseases
9	nsv976725	chr12:123412328-123429898	Weak transcription Enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:123401400-123425200	Weak transcription	Esophagus	oesophagus
2	chr12:123401400-123426000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr12:123402600-123429200	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr12:123402800-123426600	Weak transcription	NHLF	lung
5	chr12:123402800-123429200	Weak transcription	Gastric	stomach
6	chr12:123402800-123430800	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr12:123403000-123426400	Weak transcription	Left Ventricle	heart
8	chr12:123403000-123428800	Weak transcription	Lung	lung
9	chr12:123403000-123444200	Weak transcription	Aorta	Aorta
10	chr12:123403400-123427000	Weak transcription	A549	lung
11	chr12:123405200-123424800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr12:123405200-123428600	Weak transcription	NHEK	skin
13	chr12:123406800-123419800	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr12:123406800-123426600	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr12:123409400-123427600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr12:123411800-123428800	Weak transcription	Fetal Brain Male	brain
17	chr12:123412400-123427200	Weak transcription	Adipose Nuclei	Adipose
18	chr12:123412800-123427400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr12:123412800-123431800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr12:123412800-123449200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr12:123413000-123418000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr12:123413200-123418800	Weak transcription	Primary B cells from cord blood	blood
23	chr12:123413200-123424400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr12:123413400-123419800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr12:123413400-123425400	Strong transcription	Fetal Brain Female	brain
26	chr12:123413400-123427200	Weak transcription	Small Intestine	intestine
27	chr12:123413400-123427400	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr12:123413400-123427600	Weak transcription	Primary hematopoietic stem cells	blood
29	chr12:123413400-123427600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
30	chr12:123413400-123449600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr12:123413600-123421400	Weak transcription	Placenta	Placenta
32	chr12:123413600-123422000	Weak transcription	Skeletal Muscle Female	skeletal muscle
33	chr12:123413600-123431400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr12:123413600-123450000	Weak transcription	Primary T cells from cord blood	blood
35	chr12:123414000-123432400	Weak transcription	Fetal Kidney	kidney
36	chr12:123414600-123418000	Strong transcription	Brain Hippocampus Middle	brain
37	chr12:123414600-123419000	Weak transcription	Fetal Intestine Large	intestine
38	chr12:123414600-123420000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr12:123414800-123418000	Weak transcription	Thymus	Thymus
40	chr12:123414800-123419800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr12:123414800-123420200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr12:123414800-123427400	Weak transcription	Spleen	Spleen
43	chr12:123414800-123427800	Weak transcription	Right Ventricle	heart
44	chr12:123415600-123419000	Weak transcription	Fetal Muscle Leg	muscle
45	chr12:123415600-123429000	Weak transcription	Pancreas	Pancrea
46	chr12:123415800-123431600	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr12:123416000-123418000	Strong transcription	Brain Germinal Matrix	brain
48	chr12:123416200-123419000	Strong transcription	Brain Anterior Caudate	brain
49	chr12:123416600-123421200	Enhancers	GM12878-XiMat	blood
50	chr12:123416800-123419800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links