Variant report

Variant	rs10023449
Chromosome Location	chr4:99492339-99492340
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:99485403..99488335-chr4:99490236..99493906,4	MCF-7	breast:

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10021234	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10029405	0.81[ASN][1000 genomes]
rs11097622	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11940430	0.84[ASN][1000 genomes]
rs1358546	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1358547	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1534554	0.82[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1534555	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1573478	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1893713	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2866016	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4699354	0.84[ASN][1000 genomes]
rs6532751	0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7678323	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs883619	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9996851	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][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	esv2754250	chr4:99094922-99527122	Strong transcription Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv1004181	chr4:99208152-99529576	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	esv2760882	chr4:99460485-99521345	Enhancers Weak transcription Active TSS Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:99466800-99501600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
2	chr4:99479000-99506400	Weak transcription	Aorta	Aorta
3	chr4:99483200-99495800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:99483400-99498800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr4:99484200-99495400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr4:99485000-99501400	Weak transcription	HUVEC	blood vessel
7	chr4:99485400-99495000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
8	chr4:99487200-99500000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr4:99487400-99495000	Weak transcription	Primary T cells from cord blood	blood
10	chr4:99487800-99498600	Weak transcription	NHLF	lung
11	chr4:99488000-99492600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr4:99488000-99495200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr4:99488000-99495200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr4:99488000-99495400	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr4:99488000-99499000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr4:99488000-99499200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr4:99488200-99493800	Enhancers	Brain Inferior Temporal Lobe	brain
18	chr4:99488200-99494200	Enhancers	Brain Angular Gyrus	brain
19	chr4:99488200-99495200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
20	chr4:99488200-99495400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr4:99488200-99495400	Weak transcription	Stomach Smooth Muscle	stomach
22	chr4:99488200-99495800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr4:99488200-99500200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr4:99488400-99492800	Weak transcription	Rectal Smooth Muscle	rectum
25	chr4:99488400-99493000	Enhancers	Brain Hippocampus Middle	brain
26	chr4:99488400-99493600	Enhancers	Brain Cingulate Gyrus	brain
27	chr4:99488400-99493600	Weak transcription	Fetal Lung	lung
28	chr4:99488400-99495400	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr4:99488600-99493400	Weak transcription	Fetal Stomach	stomach
30	chr4:99489000-99498800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr4:99489600-99492800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
32	chr4:99489600-99493600	Enhancers	Brain Substantia Nigra	brain
33	chr4:99490000-99492600	Enhancers	Brain Anterior Caudate	brain
34	chr4:99490200-99493000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr4:99490200-99495000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr4:99490200-99499000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr4:99490400-99492600	Enhancers	Fetal Brain Female	brain
38	chr4:99490400-99493600	Weak transcription	Fetal Kidney	kidney
39	chr4:99490400-99499200	Weak transcription	Brain Germinal Matrix	brain
40	chr4:99490600-99492800	Weak transcription	Fetal Thymus	thymus
41	chr4:99490600-99495400	Weak transcription	Colon Smooth Muscle	Colon
42	chr4:99490600-99498600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr4:99490600-99498800	Weak transcription	Stomach Mucosa	stomach
44	chr4:99490600-99501400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr4:99490800-99492600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr4:99490800-99493800	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr4:99490800-99495400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr4:99490800-99499600	Weak transcription	Fetal Muscle Trunk	muscle
49	chr4:99490800-99499800	Weak transcription	Right Atrium	heart
50	chr4:99490800-99506600	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links