Variant report

Variant	rs6664501
Chromosome Location	chr1:162048813-162048814
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:162047420..162049461-chr1:162050516..162052410,2	K562	blood:
2	chr1:162038710..162042512-chr1:162047887..162051244,6	MCF-7	breast:
3	chr1:162047961..162049693-chr1:162049742..162052410,2	K562	blood:

Variant related genes	Relation type
ENSG00000198929	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10918689	1.00[EUR][1000 genomes]
rs10918690	1.00[EUR][1000 genomes]
rs10918691	1.00[EUR][1000 genomes]
rs12081556	1.00[EUR][1000 genomes]
rs12090048	1.00[EUR][1000 genomes]
rs12091634	1.00[EUR][1000 genomes]
rs12095047	1.00[EUR][1000 genomes]
rs28705106	1.00[EUR][1000 genomes]
rs4256791	1.00[EUR][1000 genomes]
rs4278353	1.00[EUR][1000 genomes]
rs4422984	1.00[EUR][1000 genomes]
rs73023251	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][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	esv33393	chr1:161478681-162080327	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
2	nsv464206	chr1:161798239-162067447	Flanking Active TSS Weak transcription Enhancers 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 miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv470744	chr1:161798239-162067447	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv548077	chr1:161798239-162067447	Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv831747	chr1:161926367-162103311	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	esv1821140	chr1:162047541-162389040	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer 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 miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:162041200-162050200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr1:162041400-162063600	Weak transcription	Fetal Stomach	stomach
3	chr1:162042400-162049200	Weak transcription	Colon Smooth Muscle	Colon
4	chr1:162042400-162050200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr1:162042600-162050400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr1:162042600-162051000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr1:162042600-162052000	Weak transcription	Fetal Kidney	kidney
8	chr1:162044800-162050200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr1:162044800-162050400	Weak transcription	Brain Inferior Temporal Lobe	brain
10	chr1:162044800-162056600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr1:162045000-162050200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr1:162045000-162056200	Weak transcription	Liver	Liver
13	chr1:162045400-162049400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:162046000-162050800	Weak transcription	HepG2	liver
15	chr1:162046800-162051200	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr1:162047600-162050600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
17	chr1:162047800-162049200	Weak transcription	Fetal Heart	heart
18	chr1:162047800-162049800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr1:162047800-162050200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr1:162047800-162050400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr1:162047800-162051000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr1:162048000-162049400	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr1:162048000-162049400	Weak transcription	Hela-S3	cervix
24	chr1:162048000-162050000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr1:162048000-162050200	Weak transcription	Right Atrium	heart
26	chr1:162048000-162050400	Weak transcription	Right Ventricle	heart
27	chr1:162048000-162050800	Weak transcription	Brain Germinal Matrix	brain
28	chr1:162048000-162051000	Weak transcription	Pancreas	Pancrea
29	chr1:162048000-162051000	Weak transcription	Stomach Mucosa	stomach
30	chr1:162048000-162051200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
31	chr1:162048000-162055600	Weak transcription	Aorta	Aorta
32	chr1:162048000-162056800	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr1:162048400-162050200	Weak transcription	Gastric	stomach
34	chr1:162048600-162049000	Weak transcription	Fetal Brain Female	brain
35	chr1:162048600-162050600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr1:162048600-162051400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr1:162048800-162049200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
38	chr1:162048800-162049600	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr1:162048800-162049600	Weak transcription	Fetal Brain Male	brain
40	chr1:162048800-162051400	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr1:162048800-162058400	Weak transcription	Left Ventricle	heart
42	chr1:162048800-162061400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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