Variant report

Variant	rs10169387
Chromosome Location	chr2:97555804-97555805
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:97547842..97556078-chr2:97610100..97619985,30	MCF-7	breast:
2	chr2:97554970..97556510-chr2:97625163..97627168,2	MCF-7	breast:
3	chr2:97554903..97557282-chr2:97563328..97565935,2	K562	blood:
4	chr2:97554940..97556485-chr2:97567959..97570783,2	K562	blood:

Variant related genes	Relation type
ENSG00000168754	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10182668	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs10182965	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs11677797	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11694296	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs12613171	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13383845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13410790	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13421275	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13423092	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13425281	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes]
rs2314650	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs28687044	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4907203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4907204	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4907205	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4907206	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4907256	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4907257	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4907258	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4907259	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4907260	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61382911	0.99[AFR][1000 genomes];0.95[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933671	chr2:96739308-97652262	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv1000780	chr2:96740430-97671395	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv535826	chr2:96740430-97671395	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
4	nsv874677	chr2:96756547-97717345	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
5	nsv1001204	chr2:96766559-97728507	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
6	nsv535827	chr2:96766559-97728507	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
7	nsv874680	chr2:97309574-97678319	Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
8	nsv526313	chr2:97333492-97660619	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
9	nsv874681	chr2:97410949-97577343	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
10	nsv874682	chr2:97423626-97567389	Transcr. at gene 5' and 3' Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:97542800-97557400	Enhancers	Placenta	Placenta
2	chr2:97548600-97556000	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr2:97552000-97556600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr2:97552000-97556800	Weak transcription	Liver	Liver
5	chr2:97552200-97557000	Weak transcription	A549	lung
6	chr2:97552600-97560800	Weak transcription	Hela-S3	cervix
7	chr2:97553400-97556000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr2:97553400-97556200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr2:97554000-97556200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr2:97554000-97557000	Weak transcription	Thymus	Thymus
11	chr2:97554200-97556000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr2:97554200-97556000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr2:97554200-97556400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr2:97554200-97556600	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr2:97554200-97556600	Weak transcription	Fetal Kidney	kidney
16	chr2:97554200-97556800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr2:97554200-97560800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr2:97554400-97556200	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr2:97554400-97556400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
20	chr2:97554400-97556400	Weak transcription	Aorta	Aorta
21	chr2:97554400-97556800	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr2:97554400-97557200	Weak transcription	Primary hematopoietic stem cells	blood
23	chr2:97554400-97557200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr2:97554400-97561000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr2:97554400-97563400	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr2:97554600-97556000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
27	chr2:97554600-97556200	Weak transcription	Left Ventricle	heart
28	chr2:97554600-97556400	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr2:97554600-97556600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr2:97554600-97557000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr2:97554600-97557000	Weak transcription	Gastric	stomach
32	chr2:97554600-97563400	Weak transcription	Fetal Heart	heart
33	chr2:97554800-97556000	Weak transcription	Primary T helper cells fromperipheralblood	blood
34	chr2:97554800-97556000	Weak transcription	Right Ventricle	heart
35	chr2:97554800-97556000	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr2:97554800-97556200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr2:97554800-97556200	Weak transcription	Fetal Lung	lung
38	chr2:97554800-97556200	Weak transcription	Psoas Muscle	Psoas
39	chr2:97554800-97556200	Weak transcription	Right Atrium	heart
40	chr2:97554800-97556200	Weak transcription	HSMMtube	muscle
41	chr2:97554800-97556600	Weak transcription	Fetal Thymus	thymus
42	chr2:97554800-97556600	Weak transcription	Stomach Mucosa	stomach
43	chr2:97554800-97556800	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr2:97554800-97556800	Weak transcription	Fetal Intestine Large	intestine
45	chr2:97554800-97557000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr2:97554800-97557400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr2:97554800-97559200	Weak transcription	NHEK	skin
48	chr2:97554800-97561200	Weak transcription	Fetal Brain Female	brain
49	chr2:97555000-97556000	Weak transcription	Brain Anterior Caudate	brain
50	chr2:97555000-97556000	Weak transcription	Brain Hippocampus Middle	brain

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