Variant report

Variant	rs73407829
Chromosome Location	chr15:55478141-55478142
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:55478102..55482206-chr15:55486011..55490260,8	MCF-7	breast:
2	chr15:55469036..55471417-chr15:55477962..55479850,2	K562	blood:
3	chr15:55473947..55475927-chr15:55477072..55479129,2	K562	blood:
4	chr15:55473058..55474936-chr15:55475651..55479463,4	K562	blood:
5	chr15:55468607..55473383-chr15:55473749..55481384,11	K562	blood:

Variant related genes	Relation type
ENSG00000137876	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12324612	1.00[EUR][1000 genomes]
rs1540869	1.00[EUR][1000 genomes]
rs28458789	1.00[EUR][1000 genomes]
rs28495958	1.00[EUR][1000 genomes]
rs4278688	1.00[EUR][1000 genomes]
rs59104728	1.00[EUR][1000 genomes]
rs60243408	1.00[EUR][1000 genomes]
rs7168690	1.00[EUR][1000 genomes]
rs7169189	1.00[EUR][1000 genomes]
rs73407831	1.00[EUR][1000 genomes]
rs73407835	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73407844	1.00[EUR][1000 genomes]
rs73407847	1.00[EUR][1000 genomes]
rs73407856	1.00[EUR][1000 genomes]
rs73407873	1.00[EUR][1000 genomes]
rs73409838	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73419725	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043176	chr15:55010228-55563000	Genic enhancers Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1042741	chr15:55068022-55622497	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1039471	chr15:55137606-55552555	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	nsv917323	chr15:55290499-56041334	Genic enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
5	nsv1043789	chr15:55400872-56092454	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
6	nsv525768	chr15:55466155-55485494	Weak transcription Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:55455800-55487200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:55462600-55488600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:55464800-55488200	Weak transcription	Lung	lung
4	chr15:55466800-55486800	Weak transcription	Psoas Muscle	Psoas
5	chr15:55467800-55480600	Weak transcription	Fetal Stomach	stomach
6	chr15:55468000-55482000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr15:55468200-55481600	Weak transcription	Fetal Intestine Small	intestine
8	chr15:55468800-55487000	Weak transcription	Gastric	stomach
9	chr15:55469000-55481800	Weak transcription	Spleen	Spleen
10	chr15:55469200-55484800	Strong transcription	Liver	Liver
11	chr15:55469200-55485000	Strong transcription	Primary T cells fromperipheralblood	blood
12	chr15:55469400-55485200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr15:55469600-55479600	Strong transcription	Primary T helper cells fromperipheralblood	blood
14	chr15:55469600-55485000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
15	chr15:55469600-55485200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr15:55469600-55486000	Strong transcription	Primary B cells from cord blood	blood
17	chr15:55469800-55484800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr15:55469800-55485000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr15:55469800-55486400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr15:55469800-55486600	Strong transcription	HUES64 Cell Line	embryonic stem cell
21	chr15:55470000-55484800	Strong transcription	Primary hematopoietic stem cells	blood
22	chr15:55470000-55484800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr15:55470200-55479800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr15:55470200-55484000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr15:55470200-55486600	Weak transcription	Small Intestine	intestine
26	chr15:55470400-55480800	Strong transcription	Dnd41	blood
27	chr15:55470400-55485000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr15:55470400-55485200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr15:55470400-55486400	Strong transcription	Primary B cells from peripheral blood	blood
30	chr15:55470400-55486400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr15:55470600-55478800	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr15:55470800-55485800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr15:55471000-55480600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr15:55471000-55484800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr15:55471000-55485000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr15:55471000-55486000	Strong transcription	HUES6 Cell Line	embryonic stem cell
37	chr15:55471000-55486200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr15:55471000-55487000	Weak transcription	Pancreas	Pancrea
39	chr15:55471400-55485800	Weak transcription	Stomach Mucosa	stomach
40	chr15:55471600-55479600	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr15:55471600-55481400	Strong transcription	K562	blood
42	chr15:55471600-55486800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
43	chr15:55471800-55478200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr15:55472000-55484800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr15:55472000-55485000	Strong transcription	Primary monocytes fromperipheralblood	blood
46	chr15:55472000-55486200	Strong transcription	Monocytes-CD14+_RO01746	blood
47	chr15:55472200-55478200	Strong transcription	Hela-S3	cervix
48	chr15:55472200-55488000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr15:55472400-55478200	Strong transcription	Primary neutrophils fromperipheralblood	blood
50	chr15:55472400-55488400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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