Variant report

Variant	rs382403
Chromosome Location	chr5:14408905-14408906
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:14403647..14406605-chr5:14407687..14409294,2	MCF-7	breast:
2	chr5:14400585..14402209-chr5:14407795..14410766,2	MCF-7	breast:
3	chr5:14407542..14409626-chr5:14411209..14413793,2	MCF-7	breast:
4	chr5:14407920..14412107-chr5:14413885..14416299,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000038382	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs11955578	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11957060	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs11957857	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13188746	0.82[AMR][1000 genomes]
rs13356126	0.82[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs154151	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs173947	0.96[ASN][1000 genomes]
rs185355	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs187190	0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs187667	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs247136	0.94[ASN][1000 genomes]
rs247137	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs256412	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs256418	0.83[ASN][1000 genomes]
rs28018	0.86[AFR][1000 genomes]
rs28343	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs30606	0.82[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs30607	0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs30608	0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs30609	0.92[ASN][1000 genomes]
rs30610	0.92[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs30611	0.82[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs30766	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs30767	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs30768	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs30772	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs30773	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs30774	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs30785	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs30786	1.00[CEU][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs30787	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs30788	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs30789	1.00[CEU][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs30790	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs30791	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs30793	0.90[AMR][1000 genomes]
rs30794	1.00[JPT][hapmap]
rs30795	1.00[JPT][hapmap]
rs30799	0.83[EUR][1000 genomes]
rs30800	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs30801	0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs378369	1.00[CEU][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs389729	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs397319	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs40278	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs40572	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs42206	0.96[ASN][1000 genomes]
rs42404	0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs42555	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs42556	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs434279	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4702029	0.90[CEU][hapmap];0.85[YRI][hapmap]

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	nsv1026914	chr5:14237782-14751588	Weak transcription Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	37 gene(s)	inside rSNPs	diseases
2	nsv830210	chr5:14255039-14431552	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv1018187	chr5:14385164-15127103	Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:14357600-14422000	Weak transcription	Stomach Mucosa	stomach
2	chr5:14363800-14430600	Strong transcription	Primary monocytes fromperipheralblood	blood
3	chr5:14363800-14430600	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr5:14392400-14426800	Weak transcription	Psoas Muscle	Psoas
5	chr5:14393600-14413600	Strong transcription	Primary B cells from cord blood	blood
6	chr5:14399000-14419800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
7	chr5:14399600-14416400	Strong transcription	Duodenum Mucosa	Duodenum
8	chr5:14400200-14413400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr5:14400600-14415000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr5:14400800-14416000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr5:14403200-14410000	Weak transcription	Brain Angular Gyrus	brain
12	chr5:14404000-14409400	Genic enhancers	HSMM	muscle
13	chr5:14404000-14420600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr5:14404200-14412600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr5:14404400-14415000	Strong transcription	Primary B cells from peripheral blood	blood
16	chr5:14404400-14428600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr5:14404600-14409400	Genic enhancers	Osteobl	bone
18	chr5:14404600-14414800	Strong transcription	Brain Germinal Matrix	brain
19	chr5:14404600-14427600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr5:14404800-14409000	Strong transcription	GM12878-XiMat	blood
21	chr5:14404800-14413000	Strong transcription	HUES48 Cell Line	embryonic stem cell
22	chr5:14404800-14413400	Strong transcription	HUES6 Cell Line	embryonic stem cell
23	chr5:14404800-14414000	Strong transcription	Fetal Brain Female	brain
24	chr5:14404800-14416200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
25	chr5:14404800-14417200	Strong transcription	HSMMtube	muscle
26	chr5:14404800-14424000	Strong transcription	Liver	Liver
27	chr5:14405000-14413600	Strong transcription	Cortex derived primary cultured neurospheres	brain
28	chr5:14405200-14409200	Genic enhancers	HUVEC	blood vessel
29	chr5:14405200-14412400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
30	chr5:14405200-14413200	Strong transcription	HUES64 Cell Line	embryonic stem cell
31	chr5:14405200-14413400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
32	chr5:14405200-14415600	Strong transcription	Skeletal Muscle Female	skeletal muscle
33	chr5:14405200-14423600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr5:14405400-14413000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
35	chr5:14405400-14416000	Strong transcription	Lung	lung
36	chr5:14405400-14423400	Strong transcription	Placenta	Placenta
37	chr5:14405600-14410400	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:14405800-14410200	Strong transcription	Rectal Smooth Muscle	rectum
39	chr5:14405800-14410200	Genic enhancers	NHDF-Ad	bronchial
40	chr5:14405800-14411600	Strong transcription	Fetal Thymus	thymus
41	chr5:14405800-14413400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr5:14406000-14411000	Strong transcription	Colonic Mucosa	Colon
43	chr5:14406000-14411800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr5:14406200-14409200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
45	chr5:14406200-14413400	Strong transcription	Rectal Mucosa Donor 31	rectum
46	chr5:14406200-14416200	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr5:14406400-14416200	Strong transcription	Hela-S3	cervix
48	chr5:14406600-14409200	Weak transcription	Fetal Heart	heart
49	chr5:14406600-14412800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr5:14406600-14414400	Strong transcription	NHLF	lung

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