Variant report

Variant	rs6540702
Chromosome Location	chr1:211830204-211830205
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:211830169-211830784	Hela-S3	cervix:	n/a	n/a

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:211687762..211689998-chr1:211828619..211830675,2	K562	blood:
2	chr1:211830163..211832496-chr1:211839404..211843044,3	K562	blood:
3	chr1:211827406..211830383-chr1:211837337..211839241,2	MCF-7	breast:
4	chr1:211751216..211754175-chr1:211827530..211832882,6	K562	blood:
5	chr1:211830163..211831945-chr1:211837161..211840904,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000222080	TF binding region
ENSG00000170385	Chromatin interaction
ENSG00000117650	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1067248	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1067249	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1067250	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10779567	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1542140	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1764617	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1822568	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2587487	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2794730	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3767375	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs701918	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs701921	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs701922	0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs785316	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs785317	0.86[ASN][1000 genomes]
rs785318	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs894852	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211817600-211830600	Weak transcription	Right Atrium	heart
2	chr1:211827600-211833800	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr1:211827600-211837600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr1:211827600-211847600	Weak transcription	HSMM	muscle
5	chr1:211827600-211847600	Weak transcription	NHEK	skin
6	chr1:211827800-211835600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr1:211827800-211836600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr1:211828200-211840400	Weak transcription	Fetal Lung	lung
9	chr1:211828400-211836600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr1:211828600-211833600	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr1:211828600-211835400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr1:211828600-211835800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr1:211828600-211835800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr1:211828600-211835800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr1:211828600-211836600	Weak transcription	H1 Cell Line	embryonic stem cell
16	chr1:211828600-211836600	Weak transcription	NHDF-Ad	bronchial
17	chr1:211828600-211837600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
18	chr1:211828600-211837800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr1:211828600-211837800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr1:211828600-211837800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr1:211828600-211837800	Weak transcription	Osteobl	bone
22	chr1:211828600-211840200	Weak transcription	HMEC	breast
23	chr1:211828600-211842400	Weak transcription	NHLF	lung
24	chr1:211828600-211842800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr1:211828600-211845600	Weak transcription	Fetal Heart	heart
26	chr1:211828600-211847600	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr1:211828600-211847600	Weak transcription	Brain Germinal Matrix	brain
28	chr1:211828600-211847800	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr1:211828600-211847800	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr1:211828600-211848000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr1:211828600-211848000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr1:211828800-211835200	Weak transcription	Fetal Thymus	thymus
33	chr1:211828800-211836600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr1:211828800-211836600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr1:211828800-211837800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr1:211828800-211837800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr1:211828800-211837800	Weak transcription	Fetal Muscle Trunk	muscle
38	chr1:211828800-211839200	Weak transcription	NH-A	brain
39	chr1:211828800-211840000	Weak transcription	HUVEC	blood vessel
40	chr1:211828800-211841800	Weak transcription	Fetal Muscle Leg	muscle
41	chr1:211828800-211847600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr1:211829000-211835400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr1:211829000-211836000	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr1:211829000-211837400	Weak transcription	Hela-S3	cervix
45	chr1:211829000-211837600	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr1:211829000-211837800	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr1:211829000-211838000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
48	chr1:211829000-211839400	Weak transcription	K562	blood
49	chr1:211829000-211842800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
50	chr1:211829000-211847400	Weak transcription	Duodenum Mucosa	Duodenum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links