Variant report

Variant	rs3800497
Chromosome Location	chr6:15482032-15482033
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15244637..15246523-chr6:15482002..15484249,2	MCF-7	breast:
2	chr6:15473996..15477838-chr6:15479843..15483274,5	K562	blood:
3	chr6:15469376..15472303-chr6:15480815..15482387,2	K562	blood:
4	chr6:15444974..15446606-chr6:15481523..15484287,2	K562	blood:
5	chr6:15480753..15482538-chr6:15489895..15492218,2	K562	blood:
6	chr6:15209931..15211902-chr6:15481074..15483809,2	K562	blood:
7	chr6:15474274..15478303-chr6:15480821..15484291,4	K562	blood:

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs2237116	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2237120	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2237139	0.90[EUR][1000 genomes]
rs2282819	0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56259001	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs742101	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9396588	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[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	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15435800-15487600	Weak transcription	Colonic Mucosa	Colon
2	chr6:15458400-15484200	Weak transcription	Small Intestine	intestine
3	chr6:15461600-15491000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:15471000-15488200	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr6:15471000-15502000	Weak transcription	A549	lung
6	chr6:15471400-15488200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr6:15472000-15484200	Weak transcription	Liver	Liver
8	chr6:15476000-15487400	Weak transcription	Duodenum Mucosa	Duodenum
9	chr6:15476200-15486600	Weak transcription	Dnd41	blood
10	chr6:15476200-15487200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:15476400-15487200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:15476600-15486600	Weak transcription	GM12878-XiMat	blood
13	chr6:15476600-15487000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr6:15476600-15487200	Weak transcription	Fetal Intestine Large	intestine
15	chr6:15476800-15484200	Weak transcription	Fetal Intestine Small	intestine
16	chr6:15476800-15487000	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr6:15476800-15487600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr6:15477200-15482400	Enhancers	Psoas Muscle	Psoas
19	chr6:15477600-15486200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr6:15477600-15487400	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr6:15477600-15487600	Weak transcription	HepG2	liver
22	chr6:15478200-15487600	Weak transcription	Ovary	ovary
23	chr6:15478400-15484400	Weak transcription	Aorta	Aorta
24	chr6:15478400-15485800	Weak transcription	Colon Smooth Muscle	Colon
25	chr6:15478400-15487600	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr6:15478600-15484000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr6:15478600-15487400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr6:15478800-15486400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr6:15479400-15482200	Enhancers	iPS-20b Cell Line	embryonic stem cell
30	chr6:15479400-15482200	Enhancers	Cortex derived primary cultured neurospheres	brain
31	chr6:15479400-15483000	Genic enhancers	HUES6 Cell Line	embryonic stem cell
32	chr6:15479400-15486200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
33	chr6:15479600-15483200	Enhancers	Fetal Heart	heart
34	chr6:15479800-15482400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr6:15479800-15482600	Enhancers	Fetal Kidney	kidney
36	chr6:15480000-15482400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
37	chr6:15480000-15482400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr6:15480000-15482400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
39	chr6:15480000-15482400	Enhancers	Fetal Lung	lung
40	chr6:15480000-15483600	Enhancers	iPS-15b Cell Line	embryonic stem cell
41	chr6:15480200-15482800	Enhancers	HUES64 Cell Line	embryonic stem cell
42	chr6:15480200-15484400	Weak transcription	Pancreas	Pancrea
43	chr6:15480200-15486200	Weak transcription	Primary B cells from cord blood	blood
44	chr6:15480200-15486200	Weak transcription	Lung	lung
45	chr6:15480200-15486200	Weak transcription	Right Ventricle	heart
46	chr6:15480200-15487400	Weak transcription	Esophagus	oesophagus
47	chr6:15480200-15487400	Weak transcription	Stomach Smooth Muscle	stomach
48	chr6:15480400-15484400	Weak transcription	Gastric	stomach
49	chr6:15480400-15484800	Enhancers	Primary T helper cells PMA-I stimulated	--
50	chr6:15480400-15486000	Weak transcription	Primary B cells from peripheral blood	blood

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