Variant report

Variant	rs10938900
Chromosome Location	chr4:22472520-22472521
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:22471253..22472855-chr4:22515638..22517354,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152990	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs10004678	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs10019604	1.00[AMR][1000 genomes]
rs28414141	1.00[AMR][1000 genomes]
rs28426972	1.00[AMR][1000 genomes]
rs28591328	1.00[AMR][1000 genomes]
rs28775576	1.00[AMR][1000 genomes]
rs28798753	1.00[AMR][1000 genomes]
rs6836362	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9992606	1.00[AMR][1000 genomes]
rs9995752	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3349061	chr4:22379581-22887563	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv878752	chr4:22414023-22501043	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv821634	chr4:22427074-22865948	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:22388400-22473600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr4:22389200-22473600	Weak transcription	Fetal Brain Male	brain
3	chr4:22419200-22476200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr4:22420600-22488000	Weak transcription	Aorta	Aorta
5	chr4:22433800-22479200	Weak transcription	Brain Hippocampus Middle	brain
6	chr4:22437400-22476400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr4:22443400-22473600	Weak transcription	Fetal Brain Female	brain
8	chr4:22443600-22476200	Weak transcription	A549	lung
9	chr4:22443800-22474600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr4:22447200-22473800	Weak transcription	Stomach Smooth Muscle	stomach
11	chr4:22447200-22475000	Weak transcription	NHLF	lung
12	chr4:22447800-22473400	Weak transcription	Brain Germinal Matrix	brain
13	chr4:22448600-22472600	Weak transcription	Primary T cells from cord blood	blood
14	chr4:22450200-22473800	Weak transcription	Primary hematopoietic stem cells	blood
15	chr4:22450200-22473800	Weak transcription	NH-A	brain
16	chr4:22450400-22474800	Weak transcription	Adipose Nuclei	Adipose
17	chr4:22450400-22476000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr4:22450400-22484000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr4:22450400-22493200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:22455600-22474200	Weak transcription	Fetal Thymus	thymus
21	chr4:22456400-22476200	Weak transcription	H9 Cell Line	embryonic stem cell
22	chr4:22456800-22476000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr4:22456800-22479000	Weak transcription	Duodenum Mucosa	Duodenum
24	chr4:22456800-22485000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr4:22457000-22473600	Weak transcription	Colon Smooth Muscle	Colon
26	chr4:22457200-22473400	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr4:22457200-22473800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr4:22457600-22473600	Weak transcription	Fetal Lung	lung
29	chr4:22460400-22472600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
30	chr4:22462000-22493200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr4:22462400-22483600	Weak transcription	Liver	Liver
32	chr4:22462600-22476200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr4:22462600-22478400	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr4:22463000-22472600	Weak transcription	Fetal Intestine Large	intestine
35	chr4:22463000-22472600	Weak transcription	HMEC	breast
36	chr4:22465400-22476200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
37	chr4:22465800-22473400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr4:22466400-22477600	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr4:22466600-22473200	Weak transcription	Esophagus	oesophagus
40	chr4:22466600-22484000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
41	chr4:22469200-22476200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
42	chr4:22469400-22475200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr4:22469600-22473000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr4:22469800-22473400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr4:22470000-22473600	Weak transcription	HSMM	muscle
46	chr4:22470000-22474800	Weak transcription	Right Atrium	heart
47	chr4:22470400-22473200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
48	chr4:22470800-22472600	Strong transcription	Cortex derived primary cultured neurospheres	brain
49	chr4:22470800-22472600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr4:22470800-22472800	Strong transcription	NHEK	skin

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