Variant report

Variant	rs4855363
Chromosome Location	chr3:69249350-69249351
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	RCOR1	chr3:69249276-69250328	Hela-S3	cervix:	n/a	n/a
2	STAT3	chr3:69249107-69250193	MCF10A-Er-Src	breast:	n/a	chr3:69249823-69249831 chr3:69249821-69249832
3	POLR2A	chr3:69248478-69250687	MCF10A-Er-Src	breast:	n/a	n/a
4	MXI1	chr3:69249206-69250210	Hela-S3	cervix:	n/a	n/a
5	MAFK	chr3:69248682-69250278	Hela-S3	cervix:	n/a	chr3:69249246-69249261 chr3:69249849-69249864 chr3:69249728-69249745
6	POLR2A	chr3:69248412-69250355	Hela-S3	cervix:	n/a	n/a
7	STAT3	chr3:69248946-69250100	MCF10A-Er-Src	breast:	n/a	chr3:69249094-69249102 chr3:69249823-69249831 chr3:69249821-69249832
8	TBP	chr3:69249254-69250531	Hela-S3	cervix:	n/a	n/a
9	GTF2F1	chr3:69249197-69250266	Hela-S3	cervix:	n/a	n/a
10	POLR2A	chr3:69248677-69250458	MCF10A-Er-Src	breast:	n/a	n/a
11	MAFK	chr3:69249092-69249426	HepG2	liver:	n/a	chr3:69249246-69249261
12	MAFF	chr3:69249140-69250203	HepG2	liver:	n/a	n/a
13	POLR2A	chr3:69249327-69249372	Hela-S3	cervix:	n/a	n/a
14	STAT3	chr3:69249112-69250197	MCF10A-Er-Src	breast:	n/a	chr3:69249823-69249831 chr3:69249821-69249832
15	MAFK	chr3:69249140-69249884	HepG2	liver:	n/a	chr3:69249246-69249261 chr3:69249849-69249864 chr3:69249728-69249745
16	STAT3	chr3:69249314-69250130	MCF10A-Er-Src	breast:	n/a	chr3:69249823-69249831 chr3:69249821-69249832

Variant related genes	Relation type
FRMD4B	TF binding region

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

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs4350924	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4525874	0.82[YRI][hapmap]
rs4528950	1.00[AMR][1000 genomes]
rs6776230	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7623429	1.00[AMR][1000 genomes]
rs9310141	0.84[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9849435	0.93[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9868107	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3398378	chr3:69240573-69271936	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69231400-69249600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr3:69231800-69249600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:69232000-69249400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr3:69232000-69275600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr3:69242400-69281600	Weak transcription	Brain Germinal Matrix	brain
6	chr3:69242600-69249400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr3:69242600-69268800	Weak transcription	Spleen	Spleen
8	chr3:69244000-69264800	Weak transcription	Fetal Brain Female	brain
9	chr3:69244200-69261800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr3:69244600-69249400	Weak transcription	Fetal Muscle Trunk	muscle
11	chr3:69246200-69249600	Weak transcription	HSMMtube	muscle
12	chr3:69246200-69266800	Weak transcription	HSMM	muscle
13	chr3:69246400-69249600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr3:69246400-69249600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr3:69246600-69249600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr3:69246600-69249600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr3:69246600-69249600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr3:69247000-69249600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr3:69247000-69249600	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr3:69247000-69249600	Active TSS	Rectal Mucosa Donor 29	rectum
21	chr3:69247000-69254000	Weak transcription	Fetal Brain Male	brain
22	chr3:69247200-69253200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:69247600-69249600	Active TSS	Duodenum Mucosa	Duodenum
24	chr3:69247600-69249800	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
25	chr3:69247600-69249800	Enhancers	Fetal Heart	heart
26	chr3:69247800-69249600	Weak transcription	Fetal Lung	lung
27	chr3:69247800-69249600	Active TSS	Rectal Mucosa Donor 31	rectum
28	chr3:69247800-69250000	Active TSS	Placenta	Placenta
29	chr3:69248000-69249400	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
30	chr3:69248000-69249800	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
31	chr3:69248000-69250000	Active TSS	Liver	Liver
32	chr3:69248000-69250200	Active TSS	Duodenum Smooth Muscle	Duodenum
33	chr3:69248000-69250200	Active TSS	Hela-S3	cervix
34	chr3:69248200-69249400	Active TSS	Primary T helper naive cells from peripheral blood	blood
35	chr3:69248200-69249600	Active TSS	Primary T helper cells PMA-I stimulated	--
36	chr3:69248200-69249600	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr3:69248200-69250000	Active TSS	Esophagus	oesophagus
38	chr3:69248200-69250200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
39	chr3:69248200-69257000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr3:69248400-69249400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr3:69248400-69249600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
42	chr3:69248400-69249600	Active TSS	Primary Natural Killer cells fromperipheralblood	blood
43	chr3:69248400-69249600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr3:69248400-69249600	Active TSS	Brain Substantia Nigra	brain
45	chr3:69248400-69249800	Active TSS	Primary B cells from cord blood	blood
46	chr3:69248400-69249800	Active TSS	Adipose Nuclei	Adipose
47	chr3:69248400-69249800	Active TSS	Fetal Kidney	kidney
48	chr3:69248400-69250000	Active TSS	Fetal Intestine Small	intestine
49	chr3:69248400-69250200	Active TSS	Pancreatic Islets	Pancreatic Islet
50	chr3:69248400-69250200	Active TSS	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links