Variant report

Variant	rs16929805
Chromosome Location	chr12:26129901-26129902
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:26111468..26113195-chr12:26128307..26131046,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000123094	Chromatin interaction
ENSG00000246695	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs16929850	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs2048608	1.00[CEU][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58597112	0.91[EUR][1000 genomes]
rs59714345	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61914180	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61914181	0.97[EUR][1000 genomes]
rs61914182	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61914183	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61914184	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61914186	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61914187	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61914211	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61914212	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61914216	0.91[EUR][1000 genomes]
rs7963582	0.91[EUR][1000 genomes]
rs7965337	0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7965449	0.97[EUR][1000 genomes];0.93[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	esv2758300	chr12:25992331-26161116	Enhancers Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
2	esv2759886	chr12:25992331-26161116	Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	38 gene(s)	inside rSNPs	diseases
3	nsv898931	chr12:26123345-26192936	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv433521	chr12:26127230-26132785	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv517117	chr12:26127230-26133925	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv522351	chr12:26127230-26149703	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:26117200-26130200	Weak transcription	Fetal Heart	heart
2	chr12:26117600-26150000	Weak transcription	Hela-S3	cervix
3	chr12:26118400-26131600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr12:26119600-26130200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr12:26121000-26131600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr12:26123800-26134000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr12:26123800-26134200	Weak transcription	Gastric	stomach
8	chr12:26123800-26137200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr12:26124400-26138000	Weak transcription	Fetal Intestine Large	intestine
10	chr12:26124800-26130800	Weak transcription	Fetal Lung	lung
11	chr12:26125000-26130800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr12:26125000-26138600	Weak transcription	Pancreas	Pancrea
13	chr12:26126400-26132200	Weak transcription	HMEC	breast
14	chr12:26126800-26131800	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr12:26126800-26134000	Weak transcription	Aorta	Aorta
16	chr12:26127000-26132000	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr12:26127200-26130000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr12:26127200-26131800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr12:26127200-26132200	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr12:26127400-26131600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
21	chr12:26127400-26131800	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr12:26127400-26131800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr12:26127800-26131600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr12:26128000-26132400	Enhancers	Rectal Smooth Muscle	rectum
25	chr12:26128200-26131600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
26	chr12:26128200-26131800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr12:26128200-26133000	Enhancers	Left Ventricle	heart
28	chr12:26128400-26132000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr12:26128400-26132000	Weak transcription	Fetal Intestine Small	intestine
30	chr12:26128400-26132200	Weak transcription	HUVEC	blood vessel
31	chr12:26128800-26130000	Flanking Active TSS	NHDF-Ad	bronchial
32	chr12:26128800-26130400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr12:26128800-26130400	Enhancers	Lung	lung
34	chr12:26129000-26130000	Flanking Active TSS	Stomach Smooth Muscle	stomach
35	chr12:26129000-26130200	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr12:26129000-26130200	Flanking Active TSS	Muscle Satellite Cultured Cells	--
37	chr12:26129000-26130400	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr12:26129000-26130400	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
39	chr12:26129000-26130800	Weak transcription	Fetal Muscle Leg	muscle
40	chr12:26129000-26130800	Enhancers	Osteobl	bone
41	chr12:26129000-26131000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr12:26129200-26130000	Active TSS	Brain Inferior Temporal Lobe	brain
43	chr12:26129200-26130000	Active TSS	HSMM	muscle
44	chr12:26129200-26130400	Enhancers	Cortex derived primary cultured neurospheres	brain
45	chr12:26129200-26130800	Enhancers	NH-A	brain
46	chr12:26129200-26131000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr12:26129400-26130000	Active TSS	Adipose Nuclei	Adipose
48	chr12:26129400-26130000	Active TSS	Brain Anterior Caudate	brain
49	chr12:26129400-26130000	Active TSS	Brain Substantia Nigra	brain
50	chr12:26129400-26130000	Active TSS	Duodenum Smooth Muscle	Duodenum

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