Variant report

Variant	rs6909900
Chromosome Location	chr6:109621736-109621737
allele	G/T
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	MEF2A	chr6:109621423-109621745	K562	blood:	n/a	chr6:109621673-109621687 chr6:109621668-109621689 chr6:109621672-109621687 chr6:109621668-109621689
2	TEAD4	chr6:109620849-109621820	K562	blood:	n/a	n/a
3	EP300	chr6:109620881-109621806	K562	blood:	n/a	chr6:109621116-109621130 chr6:109621621-109621631
4	BHLHE40	chr6:109621433-109621824	K562	blood:	n/a	n/a
5	MEF2A	chr6:109621377-109621933	K562	blood:	n/a	chr6:109621673-109621687 chr6:109621668-109621689 chr6:109621672-109621687 chr6:109621668-109621689
6	ATF1	chr6:109620889-109621775	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:109618748..109622933-chr6:109702458..109706144,5	K562	blood:
2	chr6:109619154..109621765-chr6:109622186..109624973,2	MCF-7	breast:
3	chr6:109556981..109561984-chr6:109619235..109623303,5	K562	blood:
4	chr6:109618654..109620547-chr6:109621198..109623394,2	K562	blood:
5	chr6:109617393..109622773-chr6:109623823..109627648,7	K562	blood:
6	chr6:109615226..109618359-chr6:109620080..109622324,4	K562	blood:

Variant related genes	Relation type
ENSG00000201023	TF binding region
ENSG00000243587	Chromatin interaction
ENSG00000260273	Chromatin interaction
ENSG00000203799	Chromatin interaction
ENSG00000135535	Chromatin interaction
ENSG00000201023	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1008083	0.95[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1608043	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs55863350	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs61002917	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6568562	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6568565	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6924768	0.86[YRI][hapmap];0.89[AMR][1000 genomes]
rs73512467	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73518692	0.89[AMR][1000 genomes]
rs73762681	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7753882	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7754671	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7762891	1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7773100	0.95[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9480917	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9480925	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487019	1.00[YRI][hapmap]
rs9487029	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs9487030	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs9487031	1.00[YRI][hapmap]
rs9487035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487044	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487045	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487050	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487056	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9487059	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs949883	0.91[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109614000-109622000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:109614800-109624400	Enhancers	K562	blood
3	chr6:109615400-109624600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:109615600-109622200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr6:109615600-109622600	Weak transcription	Left Ventricle	heart
6	chr6:109615600-109622600	Weak transcription	Right Ventricle	heart
7	chr6:109616200-109624400	Weak transcription	Hela-S3	cervix
8	chr6:109617800-109621800	Enhancers	Fetal Lung	lung
9	chr6:109617800-109623200	Enhancers	Fetal Muscle Leg	muscle
10	chr6:109618200-109623400	Enhancers	Colon Smooth Muscle	Colon
11	chr6:109618600-109621800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:109618800-109624800	Weak transcription	Duodenum Mucosa	Duodenum
13	chr6:109619200-109622800	Weak transcription	Ovary	ovary
14	chr6:109619200-109625800	Weak transcription	Brain Angular Gyrus	brain
15	chr6:109619200-109626800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr6:109619400-109622800	Weak transcription	Brain Anterior Caudate	brain
17	chr6:109619400-109623200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:109619400-109624600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr6:109619400-109625000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr6:109619400-109629200	Weak transcription	Gastric	stomach
21	chr6:109619400-109638000	Weak transcription	HepG2	liver
22	chr6:109619600-109621800	Weak transcription	Brain Substantia Nigra	brain
23	chr6:109619600-109622400	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr6:109619600-109623200	Weak transcription	Small Intestine	intestine
25	chr6:109619600-109624800	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr6:109619600-109625200	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr6:109619600-109625400	Enhancers	Stomach Smooth Muscle	stomach
28	chr6:109619600-109625600	Weak transcription	Lung	lung
29	chr6:109619600-109626000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr6:109620000-109621800	Enhancers	Primary monocytes fromperipheralblood	blood
31	chr6:109620000-109625000	Weak transcription	Primary B cells from cord blood	blood
32	chr6:109620200-109622000	Enhancers	Placenta	Placenta
33	chr6:109620200-109622600	Enhancers	Fetal Intestine Small	intestine
34	chr6:109620200-109622800	Enhancers	Rectal Smooth Muscle	rectum
35	chr6:109620200-109623200	Enhancers	Psoas Muscle	Psoas
36	chr6:109620200-109623400	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr6:109620400-109621800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr6:109620400-109622800	Weak transcription	Brain Hippocampus Middle	brain
39	chr6:109620400-109623600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
40	chr6:109620600-109621800	Enhancers	Monocytes-CD14+_RO01746	blood
41	chr6:109620600-109622400	Enhancers	Fetal Intestine Large	intestine
42	chr6:109620800-109621800	Enhancers	Primary B cells from peripheral blood	blood
43	chr6:109620800-109622200	Weak transcription	Fetal Stomach	stomach
44	chr6:109620800-109623400	Enhancers	Pancreatic Islets	Pancreatic Islet
45	chr6:109621200-109621800	Enhancers	Fetal Thymus	thymus
46	chr6:109621200-109621800	Enhancers	Rectal Mucosa Donor 31	rectum
47	chr6:109621200-109622000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
48	chr6:109621200-109623800	Enhancers	Stomach Mucosa	stomach
49	chr6:109621400-109621800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
50	chr6:109621400-109622400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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