Variant report

Variant	rs11737706
Chromosome Location	chr4:48900985-48900986
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	SPI1	chr4:48900938-48901793	GM12878	blood:	n/a	chr4:48901326-48901339 chr4:48901325-48901338 chr4:48901328-48901337 chr4:48901325-48901338 chr4:48901329-48901336
2	ARID3A	chr4:48900896-48901613	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr4:48900749..48905906-chr4:48906266..48908973,4	MCF-7	breast:
2	chr4:48900712..48903360-chr4:48904999..48906836,2	K562	blood:
3	chr4:48899884..48901909-chr4:48907082..48908942,2	MCF-7	breast:
4	chr4:48833316..48835209-chr4:48900334..48902659,3	K562	blood:
5	chr4:48892295..48895717-chr4:48900323..48903334,3	MCF-7	breast:
6	chr4:48899707..48901382-chr4:48907101..48909045,2	K562	blood:

Variant related genes	Relation type
OCIAD2	TF binding region
ENSG00000145247	Chromatin interaction
ENSG00000109180	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10517231	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11734191	0.83[ASN][1000 genomes]
rs13146034	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13152270	0.84[ASN][1000 genomes]
rs1455940	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1463365	0.88[ASN][1000 genomes]
rs2085292	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2289065	0.91[ASN][1000 genomes]
rs2290516	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34730980	0.90[ASN][1000 genomes]
rs62310934	0.80[ASN][1000 genomes]
rs6447670	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs724598	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7672280	0.86[EUR][1000 genomes]
rs7685360	0.87[ASN][1000 genomes]
rs7687992	0.86[ASN][1000 genomes]
rs9637562	0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1002674	chr4:48507608-49032909	Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv537087	chr4:48507608-49032909	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1010923	chr4:48575156-49083089	Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv537088	chr4:48575156-49083089	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv1013762	chr4:48580484-49032909	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv537089	chr4:48580484-49032909	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
7	nsv1010381	chr4:48701525-49309842	Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
8	nsv1003718	chr4:48771947-49083089	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
9	nsv916809	chr4:48784318-49083302	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
10	nsv1011910	chr4:48784332-49154757	ZNF genes & repeats Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
11	nsv879010	chr4:48794403-49061141	Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
12	nsv1008733	chr4:48827603-48971172	Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
13	nsv427680	chr4:48829607-49660117	ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11737706	SLC10A4	cis	lung	GTEx

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:48860400-48901400	Weak transcription	Brain Hippocampus Middle	brain
2	chr4:48879400-48907800	Weak transcription	Right Ventricle	heart
3	chr4:48887200-48904200	Weak transcription	Esophagus	oesophagus
4	chr4:48887800-48903800	Weak transcription	Placenta	Placenta
5	chr4:48890600-48906200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr4:48891000-48904200	Weak transcription	Spleen	Spleen
7	chr4:48891200-48902000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr4:48891200-48902800	Weak transcription	Fetal Kidney	kidney
9	chr4:48891200-48907800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr4:48891200-48907800	Weak transcription	Fetal Lung	lung
11	chr4:48891400-48902000	Weak transcription	Colonic Mucosa	Colon
12	chr4:48891400-48907800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr4:48891600-48903000	Weak transcription	Hela-S3	cervix
14	chr4:48891800-48901000	Strong transcription	Primary T helper cells PMA-I stimulated	--
15	chr4:48891800-48901800	Strong transcription	Fetal Thymus	thymus
16	chr4:48891800-48904600	Strong transcription	Liver	Liver
17	chr4:48892000-48901200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr4:48892000-48901400	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr4:48892000-48901400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr4:48892000-48901400	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr4:48892000-48902000	Strong transcription	Primary T cells fromperipheralblood	blood
22	chr4:48892000-48905400	Strong transcription	Duodenum Mucosa	Duodenum
23	chr4:48892200-48906600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr4:48892200-48907400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
25	chr4:48892400-48901400	Strong transcription	Primary B cells from peripheral blood	blood
26	chr4:48892400-48903000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr4:48892400-48906800	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr4:48892600-48901000	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr4:48892600-48901600	Strong transcription	Dnd41	blood
30	chr4:48892600-48906800	Strong transcription	Rectal Mucosa Donor 29	rectum
31	chr4:48892800-48907000	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr4:48893000-48901400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
33	chr4:48893000-48906800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr4:48893200-48908000	Weak transcription	Fetal Muscle Trunk	muscle
35	chr4:48893400-48901400	Strong transcription	HMEC	breast
36	chr4:48893400-48904400	Weak transcription	Lung	lung
37	chr4:48893400-48905200	Strong transcription	H9 Cell Line	embryonic stem cell
38	chr4:48893600-48901200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr4:48893600-48903200	Weak transcription	Stomach Mucosa	stomach
40	chr4:48893800-48907800	Weak transcription	Adipose Nuclei	Adipose
41	chr4:48894000-48907800	Weak transcription	Rectal Smooth Muscle	rectum
42	chr4:48894200-48901200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
43	chr4:48895000-48908000	Weak transcription	Colon Smooth Muscle	Colon
44	chr4:48895400-48901400	Weak transcription	GM12878-XiMat	blood
45	chr4:48895400-48904200	Weak transcription	Left Ventricle	heart
46	chr4:48895400-48905000	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr4:48895800-48901200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr4:48895800-48901600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr4:48895800-48906600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr4:48896200-48901400	Weak transcription	Brain Angular Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links