Variant report

Variant	rs12487113
Chromosome Location	chr3:100059693-100059694
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:100051539..100055958-chr3:100056037..100061247,9	MCF-7	breast:
2	chr3:100058351..100061697-chr3:100061751..100064533,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114021	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs12491818	1.00[AFR][1000 genomes]
rs7627378	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv1003924	chr3:99933762-100112690	Strong transcription Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	esv3387925	chr3:100056362-100059860	Weak transcription Genic enhancers Enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100054000-100065000	Weak transcription	Spleen	Spleen
2	chr3:100054200-100081000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:100054400-100067600	Weak transcription	Psoas Muscle	Psoas
4	chr3:100054600-100059800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:100054600-100060200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr3:100054600-100063000	Weak transcription	Brain Substantia Nigra	brain
7	chr3:100054600-100064200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr3:100054600-100064400	Weak transcription	Thymus	Thymus
9	chr3:100054600-100102600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr3:100054800-100060000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:100054800-100060000	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr3:100054800-100060200	Weak transcription	Right Ventricle	heart
13	chr3:100054800-100060600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr3:100054800-100061400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr3:100054800-100062200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr3:100054800-100062800	Weak transcription	HUVEC	blood vessel
17	chr3:100054800-100064200	Weak transcription	HUES48 Cell Line	embryonic stem cell
18	chr3:100054800-100064600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr3:100054800-100064600	Weak transcription	NHLF	lung
20	chr3:100054800-100067200	Weak transcription	Esophagus	oesophagus
21	chr3:100054800-100067400	Weak transcription	Small Intestine	intestine
22	chr3:100054800-100067600	Weak transcription	Colonic Mucosa	Colon
23	chr3:100054800-100068600	Weak transcription	Pancreas	Pancrea
24	chr3:100054800-100069000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr3:100054800-100081000	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr3:100054800-100097200	Weak transcription	Stomach Mucosa	stomach
27	chr3:100054800-100102200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr3:100055000-100059800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr3:100055000-100059800	Weak transcription	Colon Smooth Muscle	Colon
30	chr3:100055000-100060200	Weak transcription	Fetal Kidney	kidney
31	chr3:100055000-100060600	Weak transcription	GM12878-XiMat	blood
32	chr3:100055000-100062800	Weak transcription	Hela-S3	cervix
33	chr3:100055000-100068200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr3:100055000-100068600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr3:100055000-100082400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr3:100055200-100059800	Weak transcription	Brain Germinal Matrix	brain
37	chr3:100055200-100062600	Weak transcription	K562	blood
38	chr3:100055200-100068200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr3:100055200-100071000	Weak transcription	HepG2	liver
40	chr3:100056600-100061200	Strong transcription	Fetal Stomach	stomach
41	chr3:100056800-100061200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
42	chr3:100057000-100060400	Strong transcription	Primary hematopoietic stem cells	blood
43	chr3:100057000-100060600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr3:100057000-100061200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr3:100057000-100061200	Strong transcription	Fetal Muscle Trunk	muscle
46	chr3:100057000-100061200	Strong transcription	Fetal Muscle Leg	muscle
47	chr3:100057000-100069200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr3:100057000-100069600	Strong transcription	Dnd41	blood
49	chr3:100057200-100060000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
50	chr3:100057200-100060600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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