Variant report

Variant	rs301401
Chromosome Location	chr6:25461868-25461869
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	chr6:25461549..25464417-chr6:25470199..25472256,2	K562	blood:
2	chr6:25457887..25461292-chr6:25461516..25464637,3	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10498725	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs301398	0.88[ASN][1000 genomes]
rs395935	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs451413	0.93[ASN][1000 genomes]
rs55946641	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72839015	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs912449	0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]

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	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	esv1850810	chr6:25405576-25462543	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25418800-25462600	Weak transcription	Ovary	ovary
2	chr6:25433400-25472600	Weak transcription	Rectal Mucosa Donor 29	rectum
3	chr6:25436200-25481400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr6:25438200-25472600	Weak transcription	Duodenum Mucosa	Duodenum
5	chr6:25443200-25472600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr6:25446800-25493600	Weak transcription	Left Ventricle	heart
7	chr6:25446800-25504400	Weak transcription	Primary B cells from cord blood	blood
8	chr6:25447400-25473200	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr6:25448200-25472600	Weak transcription	Pancreas	Pancrea
10	chr6:25448400-25464400	Weak transcription	Thymus	Thymus
11	chr6:25449000-25462400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr6:25449000-25463600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr6:25449400-25515800	Weak transcription	Lung	lung
14	chr6:25450400-25488400	Weak transcription	Fetal Intestine Large	intestine
15	chr6:25450800-25462600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:25452200-25473000	Weak transcription	Fetal Intestine Small	intestine
17	chr6:25452400-25476000	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr6:25452800-25467400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr6:25454200-25472800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr6:25454600-25462400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr6:25454800-25463600	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr6:25455800-25476000	Weak transcription	Aorta	Aorta
23	chr6:25456400-25462400	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr6:25456400-25499200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr6:25456400-25515800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr6:25456400-25537000	Weak transcription	Esophagus	oesophagus
27	chr6:25459000-25473000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr6:25459200-25463600	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr6:25459400-25462800	Weak transcription	NH-A	brain
30	chr6:25459600-25465000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:25459800-25471400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr6:25460000-25464400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:25460000-25467600	Strong transcription	Primary T cells from cord blood	blood
34	chr6:25460200-25472000	Weak transcription	HMEC	breast
35	chr6:25460200-25476000	Weak transcription	NHEK	skin
36	chr6:25460400-25464400	Weak transcription	Fetal Thymus	thymus
37	chr6:25460800-25462400	Weak transcription	Fetal Lung	lung
38	chr6:25460800-25464400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr6:25461000-25462400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr6:25461000-25463600	Weak transcription	Fetal Kidney	kidney
41	chr6:25461000-25465200	Enhancers	iPS-15b Cell Line	embryonic stem cell
42	chr6:25461200-25465000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
43	chr6:25461400-25462200	Enhancers	HUES48 Cell Line	embryonic stem cell
44	chr6:25461400-25462400	Enhancers	HUES64 Cell Line	embryonic stem cell
45	chr6:25461400-25462600	Enhancers	iPS-18 Cell Line	embryonic stem cell
46	chr6:25461600-25462200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
47	chr6:25461600-25462200	Enhancers	iPS-20b Cell Line	embryonic stem cell
48	chr6:25461600-25462400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
49	chr6:25461800-25462400	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr6:25461800-25462600	Weak transcription	H1 Cell Line	embryonic stem cell

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