Variant report

Variant	rs6478581
Chromosome Location	chr9:100924221-100924222
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100923336..100926310-chr9:100946528..100948532,3	MCF-7	breast:
2	chr9:100921877..100926007-chr9:100929067..100934621,5	K562	blood:
3	chr9:100914681..100916381-chr9:100922905..100924711,2	K562	blood:
4	chr9:100922804..100924697-chr9:100928686..100930298,2	MCF-7	breast:
5	chr9:100918064..100926344-chr9:100930778..100937592,12	MCF-7	breast:
6	chr9:100919150..100921052-chr9:100923289..100924979,2	K562	blood:

Variant related genes	Relation type
ENSG00000106789	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10818534	0.96[ASN][1000 genomes]
rs12550850	0.86[ASN][1000 genomes]
rs13290961	0.89[ASN][1000 genomes]
rs1539288	0.86[ASN][1000 genomes]
rs1891322	0.87[ASN][1000 genomes]
rs4743174	0.86[ASN][1000 genomes]
rs4743175	0.86[ASN][1000 genomes]
rs4743176	0.86[ASN][1000 genomes]
rs4743177	0.86[ASN][1000 genomes]
rs4743178	0.86[ASN][1000 genomes]
rs72603681	0.86[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	nsv482635	chr9:100775549-100953239	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv893613	chr9:100885779-100943397	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1053729	chr9:100909554-100997718	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 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	chr9:100883000-100926400	Weak transcription	Small Intestine	intestine
2	chr9:100885200-100926200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr9:100889200-100930800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr9:100891000-100930800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:100892200-100926200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr9:100896000-100931000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr9:100898400-100931200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr9:100899200-100930600	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr9:100909000-100926000	Weak transcription	Sigmoid Colon	Sigmoid Colon
10	chr9:100909200-100930800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr9:100909400-100933600	Weak transcription	Colonic Mucosa	Colon
12	chr9:100910200-100924400	Weak transcription	HMEC	breast
13	chr9:100913400-100930400	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr9:100914600-100931000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr9:100915000-100924800	Weak transcription	Spleen	Spleen
16	chr9:100915400-100926400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr9:100917600-100933400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr9:100919400-100930800	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr9:100919600-100924600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr9:100919600-100932200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr9:100919800-100926000	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr9:100919800-100927000	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr9:100919800-100927800	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr9:100920000-100926400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr9:100920000-100931000	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr9:100920200-100924600	Weak transcription	Fetal Thymus	thymus
27	chr9:100920200-100925800	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr9:100920400-100924400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr9:100920400-100925800	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr9:100920400-100942200	Weak transcription	Primary T cells from cord blood	blood
31	chr9:100920600-100925400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
32	chr9:100921400-100925600	Weak transcription	Rectal Mucosa Donor 31	rectum
33	chr9:100921800-100935200	Weak transcription	Lung	lung
34	chr9:100922000-100925200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr9:100922000-100925600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr9:100922000-100925800	Weak transcription	Liver	Liver
37	chr9:100922000-100929600	Genic enhancers	Fetal Intestine Small	intestine
38	chr9:100922200-100926000	Weak transcription	Thymus	Thymus
39	chr9:100922200-100930600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr9:100922400-100924600	Weak transcription	Duodenum Mucosa	Duodenum
41	chr9:100922400-100925800	Weak transcription	Primary T cells fromperipheralblood	blood
42	chr9:100922400-100925800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
43	chr9:100922400-100926000	Weak transcription	HepG2	liver
44	chr9:100922400-100930200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr9:100922400-100933600	Weak transcription	Gastric	stomach
46	chr9:100923200-100924400	Weak transcription	Stomach Mucosa	stomach
47	chr9:100923400-100924400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr9:100924000-100924400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr9:100924000-100924600	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr9:100924000-100925200	Genic enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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