Variant report

Variant	rs4320355
Chromosome Location	chr6:25462824-25462825
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	YY1	chr6:25462473-25462990	H1-hESC	embryonic stem cell:	n/a	n/a
2	KAP1	chr6:25462685-25463105	U2OS	brain:	n/a	n/a

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:

Variant related genes	Relation type
LRRC16A	TF binding region

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1328262	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2769703	1.00[CHB][hapmap];0.95[CHD][hapmap];0.82[GIH][hapmap];0.88[JPT][hapmap];0.82[MEX][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs301397	0.95[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs301399	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs396050	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 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

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25433400-25472600	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr6:25436200-25481400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr6:25438200-25472600	Weak transcription	Duodenum Mucosa	Duodenum
4	chr6:25443200-25472600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:25446800-25493600	Weak transcription	Left Ventricle	heart
6	chr6:25446800-25504400	Weak transcription	Primary B cells from cord blood	blood
7	chr6:25447400-25473200	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr6:25448200-25472600	Weak transcription	Pancreas	Pancrea
9	chr6:25448400-25464400	Weak transcription	Thymus	Thymus
10	chr6:25449000-25463600	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr6:25449400-25515800	Weak transcription	Lung	lung
12	chr6:25450400-25488400	Weak transcription	Fetal Intestine Large	intestine
13	chr6:25452200-25473000	Weak transcription	Fetal Intestine Small	intestine
14	chr6:25452400-25476000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr6:25452800-25467400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr6:25454200-25472800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr6:25454800-25463600	Weak transcription	Primary monocytes fromperipheralblood	blood
18	chr6:25455800-25476000	Weak transcription	Aorta	Aorta
19	chr6:25456400-25499200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr6:25456400-25515800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr6:25456400-25537000	Weak transcription	Esophagus	oesophagus
22	chr6:25459000-25473000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr6:25459200-25463600	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr6:25459600-25465000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr6:25459800-25471400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr6:25460000-25464400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr6:25460000-25467600	Strong transcription	Primary T cells from cord blood	blood
28	chr6:25460200-25472000	Weak transcription	HMEC	breast
29	chr6:25460200-25476000	Weak transcription	NHEK	skin
30	chr6:25460400-25464400	Weak transcription	Fetal Thymus	thymus
31	chr6:25460800-25464400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr6:25461000-25463600	Weak transcription	Fetal Kidney	kidney
33	chr6:25461000-25465200	Enhancers	iPS-15b Cell Line	embryonic stem cell
34	chr6:25461200-25465000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
35	chr6:25461800-25469200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr6:25462200-25463400	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell
37	chr6:25462200-25464600	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr6:25462400-25463000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr6:25462400-25463200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
40	chr6:25462400-25463200	Flanking Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr6:25462400-25463200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr6:25462400-25463200	Flanking Active TSS	HUES6 Cell Line	embryonic stem cell
43	chr6:25462400-25463200	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
44	chr6:25462400-25463200	Enhancers	Cortex derived primary cultured neurospheres	brain
45	chr6:25462400-25463400	Enhancers	Fetal Lung	lung
46	chr6:25462400-25463800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
47	chr6:25462600-25463000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr6:25462600-25463200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
49	chr6:25462600-25463200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr6:25462600-25464000	Enhancers	H1 Cell Line	embryonic stem cell

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