Variant report

Variant	rs28414007
Chromosome Location	chr12:31879152-31879153
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	chr12:31878745..31882142-chr12:32111934..32114509,3	K562	blood:

Variant related genes	Relation type
ENSG00000174718	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11836705	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11836727	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11836739	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55654071	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57003468	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57914624	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60077276	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60314175	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60342738	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60685674	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60923381	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74085202	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74087504	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74087505	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74087506	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74087511	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74087512	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74087514	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74087517	0.81[AFR][1000 genomes];1.00[AMR][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	esv2760267	chr12:31626732-31909908	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
2	nsv1043010	chr12:31798446-32143151	ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv541446	chr12:31798446-32143151	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv3432694	chr12:31801467-32109828	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv898966	chr12:31810126-31944985	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
6	nsv898967	chr12:31858031-31899475	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	esv2422415	chr12:31863360-31930722	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv558100	chr12:31866833-32185924	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
9	nsv1045464	chr12:31869888-32183792	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
10	nsv541447	chr12:31869888-32183792	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
11	esv3363806	chr12:31872264-32410283	Strong transcription Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
12	esv3508621	chr12:31872654-32410593	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
13	esv3508622	chr12:31872654-32410593	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
14	nsv558101	chr12:31876666-32006563	Weak transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
15	nsv1050448	chr12:31877289-31927006	Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:31838600-31881000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr12:31849000-31880000	Weak transcription	Psoas Muscle	Psoas
3	chr12:31851000-31880800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr12:31852800-31879600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr12:31860800-31881000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr12:31862200-31880600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr12:31868400-31879600	Weak transcription	Brain Angular Gyrus	brain
8	chr12:31868800-31880800	Weak transcription	Brain Anterior Caudate	brain
9	chr12:31868800-31881000	Weak transcription	Adipose Nuclei	Adipose
10	chr12:31869000-31880000	Weak transcription	Brain Hippocampus Middle	brain
11	chr12:31869000-31880800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr12:31870200-31880600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr12:31870400-31881200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr12:31872000-31881200	Weak transcription	Fetal Muscle Trunk	muscle
15	chr12:31872200-31880000	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr12:31872200-31880200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr12:31872200-31880600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr12:31872200-31880800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr12:31872200-31880800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr12:31872200-31881200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr12:31872200-31881200	Weak transcription	Ovary	ovary
22	chr12:31872200-31881400	Weak transcription	Esophagus	oesophagus
23	chr12:31872200-31881400	Weak transcription	Gastric	stomach
24	chr12:31872600-31879600	Weak transcription	Dnd41	blood
25	chr12:31872600-31880800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr12:31873200-31881000	Weak transcription	Fetal Kidney	kidney
27	chr12:31873800-31881000	Weak transcription	Fetal Lung	lung
28	chr12:31874400-31881200	Weak transcription	Fetal Stomach	stomach
29	chr12:31874600-31881000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr12:31874800-31880000	Weak transcription	Placenta	Placenta
31	chr12:31874800-31880800	Weak transcription	Stomach Smooth Muscle	stomach
32	chr12:31875000-31881200	Weak transcription	Left Ventricle	heart
33	chr12:31875200-31880000	Weak transcription	Pancreas	Pancrea
34	chr12:31875200-31880600	Weak transcription	Right Ventricle	heart
35	chr12:31875200-31881000	Weak transcription	NHEK	skin
36	chr12:31875200-31881400	Weak transcription	Spleen	Spleen
37	chr12:31875400-31880800	Weak transcription	Fetal Heart	heart
38	chr12:31875800-31881000	Weak transcription	Fetal Intestine Small	intestine
39	chr12:31876600-31880800	Enhancers	Liver	Liver
40	chr12:31876800-31880800	Weak transcription	Duodenum Mucosa	Duodenum
41	chr12:31876800-31881400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr12:31876800-31882200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
43	chr12:31877000-31879400	Weak transcription	Stomach Mucosa	stomach
44	chr12:31877000-31880000	Weak transcription	Primary T helper cells fromperipheralblood	blood
45	chr12:31877000-31881000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
46	chr12:31877000-31881000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr12:31877000-31881000	Weak transcription	Brain Cingulate Gyrus	brain
48	chr12:31877200-31880200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr12:31877200-31880800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
50	chr12:31877400-31879600	Weak transcription	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links