Variant report

Variant	rs9464792
Chromosome Location	chr6:15498481-15498482
allele	A/G
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	POLR2A	chr6:15498346-15500236	H1-hESC	embryonic stem cell:	n/a	n/a
2	POLR2A	chr6:15496114-15498485	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr6:15498071-15500211	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:15497600..15499927-chr6:15509005..15511322,2	K562	blood:

Variant related genes	Relation type
JARID2	TF binding region

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs16876554	0.85[CEU][hapmap];0.86[GIH][hapmap];0.92[MEX][hapmap];0.92[TSI][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs16876555	0.85[CEU][hapmap];0.86[GIH][hapmap];0.92[MEX][hapmap];0.92[TSI][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2064099	0.90[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2076058	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2237110	0.85[CEU][hapmap];0.86[GIH][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2743861	0.82[MEX][hapmap]
rs3778651	0.82[MEX][hapmap];0.92[TSI][hapmap];0.83[EUR][1000 genomes]
rs3819397	0.92[ASN][1000 genomes]
rs6903151	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6925211	0.86[AMR][1000 genomes]
rs7756497	1.00[CEU][hapmap];0.86[AMR][1000 genomes]
rs9296975	0.92[TSI][hapmap];0.85[EUR][1000 genomes]
rs9654600	0.81[EUR][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	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
3	nsv522265	chr6:15494177-15546213	ZNF genes & repeats Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15471000-15502000	Weak transcription	A549	lung
2	chr6:15486800-15502000	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:15487200-15508000	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr6:15489200-15504400	Weak transcription	Fetal Brain Female	brain
5	chr6:15491800-15501400	Weak transcription	NH-A	brain
6	chr6:15492000-15501800	Weak transcription	Fetal Brain Male	brain
7	chr6:15492200-15501200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr6:15492200-15507800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr6:15492200-15508200	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr6:15492200-15527000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr6:15492400-15498600	Weak transcription	Brain Substantia Nigra	brain
12	chr6:15492400-15502400	Strong transcription	Fetal Intestine Small	intestine
13	chr6:15492400-15527200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr6:15492600-15522200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr6:15492800-15515000	Strong transcription	Thymus	Thymus
16	chr6:15492800-15527000	Strong transcription	Primary T helper cells PMA-I stimulated	--
17	chr6:15493000-15501600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr6:15493000-15501600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr6:15493000-15501800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr6:15493000-15504200	Strong transcription	Fetal Thymus	thymus
21	chr6:15493400-15502000	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr6:15493800-15520000	Weak transcription	Hela-S3	cervix
23	chr6:15494200-15522400	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr6:15494400-15498800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr6:15494400-15501600	Weak transcription	Fetal Kidney	kidney
26	chr6:15494600-15506000	Strong transcription	HUES48 Cell Line	embryonic stem cell
27	chr6:15494600-15507400	Strong transcription	HUES64 Cell Line	embryonic stem cell
28	chr6:15494800-15524000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:15494800-15527000	Strong transcription	Primary B cells from peripheral blood	blood
30	chr6:15495000-15499200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
31	chr6:15495000-15499800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr6:15495000-15527200	Strong transcription	Dnd41	blood
33	chr6:15495000-15529200	Strong transcription	Primary T cells from cord blood	blood
34	chr6:15495200-15508400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
35	chr6:15495200-15525800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr6:15495400-15498600	Strong transcription	Spleen	Spleen
37	chr6:15495400-15504200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr6:15495400-15504800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr6:15495400-15506400	Strong transcription	H9 Cell Line	embryonic stem cell
40	chr6:15495400-15508600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
41	chr6:15495400-15525000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr6:15495600-15502000	Weak transcription	Psoas Muscle	Psoas
43	chr6:15495600-15503200	Strong transcription	HepG2	liver
44	chr6:15495600-15504200	Weak transcription	NHDF-Ad	bronchial
45	chr6:15495800-15498600	Strong transcription	HMEC	breast
46	chr6:15495800-15498800	Strong transcription	HUES6 Cell Line	embryonic stem cell
47	chr6:15495800-15498800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr6:15495800-15500000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
49	chr6:15495800-15501800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr6:15495800-15503000	Strong transcription	Liver	Liver

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