Variant report

Variant	rs17001654
Chromosome Location	chr4:77129568-77129569
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:77122262..77124788-chr4:77127198..77129570,2	K562	blood:
2	chr4:77117574..77120210-chr4:77127527..77130330,2	K562	blood:
3	chr4:77125920..77131688-chr4:77131770..77137672,14	K562	blood:
4	chr4:77122932..77125835-chr4:77128901..77130952,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000189157	Chromatin interaction
ENSG00000138760	Chromatin interaction

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

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

rs_ID	r²[population]
rs11097233	1.00[CHD][hapmap];1.00[JPT][hapmap]
rs12508946	0.94[CEU][hapmap];0.95[MEX][hapmap];0.91[TSI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17001561	0.92[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2119733	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61750814	0.81[AMR][1000 genomes]
rs6825004	0.92[ASW][hapmap];0.93[YRI][hapmap]
rs6829784	1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6835324	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72655532	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72655536	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72655538	0.94[EUR][1000 genomes]
rs72655539	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9994218	1.00[YRI][hapmap]

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	esv1799666	chr4:77119942-77129568	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:77113200-77134000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:77113600-77134200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr4:77117000-77134000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:77117400-77132800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr4:77120000-77130200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr4:77120200-77129600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:77120400-77129800	Weak transcription	Dnd41	blood
8	chr4:77121000-77129600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr4:77121400-77129600	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr4:77121400-77129800	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr4:77121400-77132800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr4:77121400-77133600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr4:77121400-77134000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr4:77121600-77129600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr4:77121600-77131000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr4:77122200-77129600	Weak transcription	Primary B cells from peripheral blood	blood
17	chr4:77122200-77130800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr4:77122400-77129600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr4:77122400-77129600	Weak transcription	Esophagus	oesophagus
20	chr4:77122400-77133600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr4:77122600-77129600	Weak transcription	Fetal Thymus	thymus
22	chr4:77122600-77129800	Weak transcription	Thymus	Thymus
23	chr4:77123200-77129600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
24	chr4:77124600-77129600	Weak transcription	Fetal Muscle Trunk	muscle
25	chr4:77125200-77130000	Weak transcription	Spleen	Spleen
26	chr4:77127000-77129600	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr4:77127000-77130800	Enhancers	Placenta	Placenta
28	chr4:77127000-77131600	Enhancers	Fetal Heart	heart
29	chr4:77127400-77129800	Enhancers	Fetal Intestine Small	intestine
30	chr4:77127600-77129600	Weak transcription	Pancreas	Pancrea
31	chr4:77127600-77130000	Weak transcription	Gastric	stomach
32	chr4:77127600-77130000	Weak transcription	Lung	lung
33	chr4:77127600-77130200	Enhancers	HMEC	breast
34	chr4:77127800-77130200	Enhancers	Brain Germinal Matrix	brain
35	chr4:77127800-77130800	Enhancers	Fetal Muscle Leg	muscle
36	chr4:77128000-77129600	Weak transcription	GM12878-XiMat	blood
37	chr4:77128200-77129600	Enhancers	Primary hematopoietic stem cells	blood
38	chr4:77128200-77130000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr4:77128400-77133200	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr4:77128600-77129600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
41	chr4:77128600-77129800	Enhancers	Fetal Stomach	stomach
42	chr4:77128600-77129800	Enhancers	Stomach Mucosa	stomach
43	chr4:77128600-77130000	Active TSS	Right Atrium	heart
44	chr4:77128600-77130400	Enhancers	Fetal Brain Male	brain
45	chr4:77128600-77133000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr4:77128800-77130200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
47	chr4:77128800-77130400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
48	chr4:77128800-77133400	Enhancers	Primary T helper cells fromperipheralblood	blood
49	chr4:77128800-77133600	Enhancers	Small Intestine	intestine
50	chr4:77129000-77129800	Enhancers	Primary T killer memory cells from peripheral blood	blood

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