Variant report

Variant	rs71399778
Chromosome Location	chr15:74471378-74471379
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:74471188..74474733-chr15:74480852..74485546,5	MCF-7	breast:
2	chr15:74466900..74472644-chr15:74474380..74478364,5	K562	blood:
3	chr15:74466900..74472029-chr15:74474380..74478364,5	K562	blood:
4	chr15:74466286..74468382-chr15:74470933..74472488,2	MCF-7	breast:
5	chr15:74465289..74467713-chr15:74468699..74473006,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000129009	Chromatin interaction
ENSG00000137868	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs11630317	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11630924	0.88[EUR][1000 genomes]
rs11631509	0.85[EUR][1000 genomes]
rs11631944	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11639090	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11639369	0.88[EUR][1000 genomes]
rs11854957	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11855667	0.86[EUR][1000 genomes]
rs11857410	0.88[EUR][1000 genomes]
rs12899173	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12907503	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12911581	0.84[EUR][1000 genomes]
rs12912258	0.88[EUR][1000 genomes]
rs12912578	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12913041	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12915891	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13259	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2062309	0.98[EUR][1000 genomes]
rs2415169	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2899824	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34147822	0.88[EUR][1000 genomes]
rs34573746	0.88[EUR][1000 genomes]
rs34868798	0.99[EUR][1000 genomes]
rs351242	0.83[EUR][1000 genomes]
rs35255788	0.88[EUR][1000 genomes]
rs35462746	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs35661273	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs3848160	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3848161	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3888004	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs409856	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62003660	0.88[EUR][1000 genomes]
rs62003661	0.85[EUR][1000 genomes]
rs62005707	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs62005709	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62005710	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62005711	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs733163	0.88[EUR][1000 genomes]
rs8037531	0.98[EUR][1000 genomes]
rs923118	0.99[EUR][1000 genomes]
rs9630417	0.98[EUR][1000 genomes]
rs971755	0.88[EUR][1000 genomes]
rs971756	0.88[EUR][1000 genomes]
rs971757	0.89[EUR][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	nsv833053	chr15:74360156-74555140	Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv1050884	chr15:74394983-74489413	Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv833054	chr15:74457643-74625283	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv904345	chr15:74458181-74526596	Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv904346	chr15:74458181-74548773	Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv904347	chr15:74462629-74537101	Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv904348	chr15:74462629-74542686	Genic enhancers Enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:74 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74464800-74473600	Enhancers	Right Ventricle	heart
2	chr15:74465200-74472200	Weak transcription	Brain Substantia Nigra	brain
3	chr15:74465200-74473000	Enhancers	Brain Germinal Matrix	brain
4	chr15:74466000-74472000	Enhancers	Placenta	Placenta
5	chr15:74466200-74471600	Weak transcription	Brain Anterior Caudate	brain
6	chr15:74466200-74492800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr15:74466600-74473200	Enhancers	HSMMtube	muscle
8	chr15:74466600-74480600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr15:74467200-74473600	Enhancers	Right Atrium	heart
10	chr15:74467400-74471600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr15:74467400-74472200	Weak transcription	Pancreas	Pancrea
12	chr15:74467400-74473400	Genic enhancers	Fetal Stomach	stomach
13	chr15:74467400-74473800	Enhancers	NHDF-Ad	bronchial
14	chr15:74467600-74473200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr15:74467800-74472400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr15:74467800-74473600	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr15:74468000-74471600	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr15:74468000-74472200	Weak transcription	Gastric	stomach
19	chr15:74468400-74471400	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr15:74468400-74471600	Enhancers	HSMM	muscle
21	chr15:74468400-74473400	Enhancers	Cortex derived primary cultured neurospheres	brain
22	chr15:74468400-74473600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
23	chr15:74468600-74473200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr15:74468600-74473600	Enhancers	NH-A	brain
25	chr15:74469000-74471400	Enhancers	Muscle Satellite Cultured Cells	--
26	chr15:74469000-74471400	Enhancers	Adipose Nuclei	Adipose
27	chr15:74469000-74471400	Weak transcription	Esophagus	oesophagus
28	chr15:74469000-74472200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr15:74469000-74472800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr15:74469000-74473200	Enhancers	NHLF	lung
31	chr15:74469200-74471400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr15:74469200-74471600	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr15:74469200-74471600	Enhancers	A549	lung
34	chr15:74469200-74471800	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
35	chr15:74469200-74472200	Weak transcription	Colon Smooth Muscle	Colon
36	chr15:74469200-74473200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr15:74469200-74474000	Enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr15:74469200-74491800	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr15:74469400-74471400	Genic enhancers	Fetal Muscle Trunk	muscle
40	chr15:74469400-74487600	Weak transcription	H1 Cell Line	embryonic stem cell
41	chr15:74469400-74493200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr15:74469600-74472200	Enhancers	Osteobl	bone
43	chr15:74469800-74471600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr15:74469800-74472200	Weak transcription	Fetal Intestine Small	intestine
45	chr15:74470000-74472600	Weak transcription	HUES6 Cell Line	embryonic stem cell
46	chr15:74470000-74472600	Enhancers	Brain Angular Gyrus	brain
47	chr15:74470000-74473000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr15:74470000-74473400	Enhancers	HUVEC	blood vessel
49	chr15:74470000-74473800	Enhancers	Left Ventricle	heart
50	chr15:74470200-74471400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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