Variant report

Variant	rs9374411
Chromosome Location	chr6:113972650-113972651
allele	C/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	ATF2	chr6:113972201-113972765	GM12878	blood:	n/a	n/a
2	RUNX3	chr6:113972316-113972795	GM12878	blood:	n/a	n/a
3	CHD1	chr6:113972420-113972730	GM12878	blood:	n/a	n/a
4	MXI1	chr6:113972402-113972677	GM12878	blood:	n/a	n/a
5	RUNX3	chr6:113971894-113972770	GM12878	blood:	n/a	n/a
6	EBF1	chr6:113972418-113972696	GM12878	blood:	n/a	n/a
7	POLR2A	chr6:113969444-113972785	GM12891	blood:	n/a	n/a
8	MTA3	chr6:113971365-113972871	GM12878	blood:	n/a	n/a
9	POLR2A	chr6:113971637-113972807	GM12892	blood:	n/a	n/a
10	PAX5	chr6:113972330-113972691	GM12878	blood:	n/a	n/a
11	MAX	chr6:113972360-113972686	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:113970166..113973032-chr6:114177740..114182018,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000230943	TF binding region
ENSG00000155130	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs2166041	1.00[CEU][hapmap];0.90[CHB][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35368806	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35586117	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72952697	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7746603	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374412	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9374411	FLJ34503	cis	cerebellum	SCAN

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:113967400-113975600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:113967600-113980600	Weak transcription	Placenta	Placenta
3	chr6:113969800-113973400	Enhancers	Fetal Heart	heart
4	chr6:113970200-113975000	Enhancers	Primary B cells from peripheral blood	blood
5	chr6:113970600-113972800	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr6:113970600-113972800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr6:113970800-113975600	Weak transcription	Small Intestine	intestine
8	chr6:113970800-113975800	Weak transcription	Aorta	Aorta
9	chr6:113970800-113977400	Enhancers	Breast Myoepithelial Primary Cells	Breast
10	chr6:113971000-113975600	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr6:113971200-113972800	Enhancers	Fetal Muscle Leg	muscle
12	chr6:113971200-113974800	Weak transcription	Liver	Liver
13	chr6:113971200-113975400	Weak transcription	Osteobl	bone
14	chr6:113971200-113976000	Weak transcription	Adipose Nuclei	Adipose
15	chr6:113971400-113972800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr6:113971400-113972800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr6:113971400-113974800	Enhancers	GM12878-XiMat	blood
18	chr6:113971400-113981000	Weak transcription	Fetal Intestine Large	intestine
19	chr6:113971600-113972800	Enhancers	NHEK	skin
20	chr6:113971600-113974800	Weak transcription	Stomach Mucosa	stomach
21	chr6:113971600-113974800	Weak transcription	A549	lung
22	chr6:113971600-113975200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr6:113971600-113979000	Weak transcription	HepG2	liver
24	chr6:113972000-113972800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr6:113972000-113974400	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr6:113972200-113974000	Enhancers	Primary B cells from cord blood	blood
27	chr6:113972400-113972800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr6:113972400-113972800	Enhancers	Fetal Muscle Trunk	muscle
29	chr6:113972400-113972800	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr6:113972400-113972800	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr6:113972400-113973400	Enhancers	Fetal Intestine Small	intestine
32	chr6:113972400-113975000	Enhancers	Monocytes-CD14+_RO01746	blood
33	chr6:113972600-113972800	Active TSS	Brain Hippocampus Middle	brain
34	chr6:113972600-113974600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr6:113972600-113974800	Weak transcription	HMEC	breast
36	chr6:113972600-113975000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr6:113972600-113975600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr6:113972600-113975600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr6:113972600-113975600	Weak transcription	Gastric	stomach
40	chr6:113972600-113976000	Enhancers	Primary monocytes fromperipheralblood	blood

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