Variant report

Variant	rs12024098
Chromosome Location	chr1:168606217-168606218
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:168606099..168608125-chr1:168618490..168620719,2	MCF-7	breast:
2	chr1:168605162..168606714-chr1:168878547..168880681,2	K562	blood:
3	chr1:168605717..168608617-chr1:168609502..168611325,2	MCF-7	breast:
4	chr1:168604931..168606716-chr1:169074466..169076968,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000143153	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs1018412	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10489216	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10800372	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12048839	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014626	chr1:168441288-168642731	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv535196	chr1:168441288-168642731	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1011821	chr1:168441488-168642592	Active TSS Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv535197	chr1:168441488-168642592	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	nsv1008852	chr1:168449940-168643905	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
6	nsv535198	chr1:168449940-168643905	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
7	nsv1007846	chr1:168449940-168687265	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv869415	chr1:168467284-169153863	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
9	nsv831836	chr1:168538779-168716956	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv3443	chr1:168577582-168622305	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:168601600-168613600	Weak transcription	Psoas Muscle	Psoas
2	chr1:168603000-168607000	Enhancers	Skeletal Muscle Female	skeletal muscle
3	chr1:168603800-168606600	Enhancers	Skeletal Muscle Male	skeletal muscle
4	chr1:168604200-168606400	Enhancers	Rectal Smooth Muscle	rectum
5	chr1:168604400-168606600	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr1:168604400-168606800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr1:168604400-168607600	Enhancers	HMEC	breast
8	chr1:168604800-168607000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr1:168604800-168607000	Enhancers	Fetal Intestine Large	intestine
10	chr1:168604800-168607600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr1:168605000-168607000	Enhancers	Brain Cingulate Gyrus	brain
12	chr1:168605200-168607200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr1:168605200-168607400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr1:168605400-168606600	Enhancers	Osteobl	bone
15	chr1:168605400-168606800	Enhancers	HSMM	muscle
16	chr1:168605400-168606800	Enhancers	NHEK	skin
17	chr1:168605600-168606400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
18	chr1:168605600-168606400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr1:168605600-168606600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr1:168605600-168606600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
21	chr1:168605600-168606600	Enhancers	Primary hematopoietic stem cells short term culture	blood
22	chr1:168605600-168606600	Enhancers	Brain Hippocampus Middle	brain
23	chr1:168605600-168606600	Enhancers	Hela-S3	cervix
24	chr1:168605600-168606600	Enhancers	HSMMtube	muscle
25	chr1:168605600-168606600	Enhancers	NH-A	brain
26	chr1:168605600-168606800	Enhancers	Brain Angular Gyrus	brain
27	chr1:168605600-168606800	Enhancers	Brain Inferior Temporal Lobe	brain
28	chr1:168605600-168607000	Enhancers	Brain Anterior Caudate	brain
29	chr1:168605600-168607000	Enhancers	Fetal Heart	heart
30	chr1:168605600-168607200	Enhancers	Placenta Amnion	Placenta Amnion
31	chr1:168605800-168606400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr1:168605800-168606400	Enhancers	K562	blood
33	chr1:168605800-168606800	Enhancers	Adipose Nuclei	Adipose
34	chr1:168605800-168606800	Enhancers	Brain Substantia Nigra	brain
35	chr1:168605800-168607000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr1:168606000-168606400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr1:168606000-168607000	Enhancers	HepG2	liver
38	chr1:168606200-168606400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
39	chr1:168606200-168606600	Enhancers	Fetal Intestine Small	intestine
40	chr1:168606200-168607000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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