Variant report

Variant	rs73835924
Chromosome Location	chr4:102228035-102228036
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:102226021..102228958-chr4:102267685..102270990,3	MCF-7	breast:
2	chr4:102226380..102228700-chr4:102233879..102237672,3	MCF-7	breast:
3	chr4:102129139..102132021-chr4:102226843..102229507,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138814	Chromatin interaction
ENSG00000254531	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs1011849	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs11943655	1.00[AMR][1000 genomes]
rs11946103	1.00[AMR][1000 genomes]
rs1372243	0.97[AFR][1000 genomes]
rs1372244	0.92[AFR][1000 genomes]
rs1441431	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs1441434	1.00[AMR][1000 genomes]
rs1561722	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs17031168	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs17031172	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs17031175	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs17031176	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs17031180	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs17031182	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs3974659	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs4488940	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4504259	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4637408	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55667372	0.92[AFR][1000 genomes]
rs58629361	0.92[AFR][1000 genomes]
rs59079781	0.97[AFR][1000 genomes]
rs59224049	0.92[AFR][1000 genomes]
rs59763039	0.92[AFR][1000 genomes]
rs60438397	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs60984918	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6532924	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6532925	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6532926	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6810812	0.92[AFR][1000 genomes]
rs6812094	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6827528	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6828025	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6830390	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6831471	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6832020	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6834721	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6837858	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6842191	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6844844	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6846554	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs6852282	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73835916	1.00[AMR][1000 genomes]
rs73835923	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835931	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835932	0.91[AMR][1000 genomes]
rs73835933	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835934	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73835935	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73835936	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73835937	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73835938	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73835939	0.92[AFR][1000 genomes]
rs73835940	0.92[AFR][1000 genomes]
rs73835941	0.92[AFR][1000 genomes]
rs73835943	0.91[AFR][1000 genomes]
rs73835944	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs7655806	1.00[AMR][1000 genomes]
rs7661895	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7664396	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs7671524	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1011351	chr4:102056024-102450302	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
7	nsv879676	chr4:102202285-102340930	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:84 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102215000-102232600	Weak transcription	Pancreas	Pancrea
2	chr4:102215400-102236600	Weak transcription	Primary B cells from cord blood	blood
3	chr4:102222000-102232800	Weak transcription	Lung	lung
4	chr4:102225400-102228600	Enhancers	Brain Hippocampus Middle	brain
5	chr4:102225400-102228600	Enhancers	Brain Substantia Nigra	brain
6	chr4:102225400-102228800	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr4:102225600-102228600	Enhancers	iPS-18 Cell Line	embryonic stem cell
8	chr4:102225600-102229200	Enhancers	Brain Anterior Caudate	brain
9	chr4:102225800-102228200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
10	chr4:102225800-102229800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr4:102226000-102228400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr4:102226000-102228400	Enhancers	NH-A	brain
13	chr4:102226000-102228600	Enhancers	H1 Cell Line	embryonic stem cell
14	chr4:102226000-102228800	Enhancers	A549	lung
15	chr4:102226000-102229200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr4:102226200-102228200	Enhancers	Brain Cingulate Gyrus	brain
17	chr4:102226200-102228400	Enhancers	Primary T helper naive cells from peripheral blood	blood
18	chr4:102226200-102228600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr4:102226200-102228600	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr4:102226200-102228600	Enhancers	Skeletal Muscle Female	skeletal muscle
21	chr4:102226200-102228800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
22	chr4:102226200-102228800	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr4:102226200-102229000	Enhancers	Primary T helper cells fromperipheralblood	blood
24	chr4:102226200-102229000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
25	chr4:102226200-102229800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
26	chr4:102226400-102228200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr4:102226400-102228200	Enhancers	iPS-20b Cell Line	embryonic stem cell
28	chr4:102226400-102228200	Enhancers	Brain Angular Gyrus	brain
29	chr4:102226400-102228400	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr4:102226400-102229200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
31	chr4:102226400-102232600	Weak transcription	Left Ventricle	heart
32	chr4:102226600-102229000	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr4:102226600-102229000	Weak transcription	Muscle Satellite Cultured Cells	--
34	chr4:102226600-102229600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr4:102227000-102229800	Enhancers	NHLF	lung
36	chr4:102227200-102228200	Enhancers	Psoas Muscle	Psoas
37	chr4:102227200-102228200	Flanking Active TSS	HMEC	breast
38	chr4:102227200-102228400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
39	chr4:102227200-102228600	Enhancers	Primary T helper cells PMA-I stimulated	--
40	chr4:102227200-102228600	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr4:102227200-102228800	Enhancers	Primary T cells from cord blood	blood
42	chr4:102227200-102229000	Enhancers	Primary B cells from peripheral blood	blood
43	chr4:102227200-102229000	Flanking Active TSS	GM12878-XiMat	blood
44	chr4:102227200-102229200	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr4:102227200-102229200	Enhancers	Colon Smooth Muscle	Colon
46	chr4:102227200-102230200	Enhancers	NHEK	skin
47	chr4:102227400-102228200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr4:102227400-102228200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
49	chr4:102227400-102228200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
50	chr4:102227400-102228200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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