Variant report

Variant	rs12342876
Chromosome Location	chr9:136892309-136892310
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:136892188-136892613	MCF-7	breast:	n/a	n/a

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:136890645..136892420-chr9:136892471..136894163,2	K562	blood:
2	chr9:136890470..136892525-chr9:136914394..136917333,2	K562	blood:
3	chr9:136888954..136894255-chr9:136931474..136935040,9	K562	blood:
4	chr9:136888457..136893834-chr9:136930854..136936517,11	MCF-7	breast:
5	chr9:136889870..136892902-chr9:136892951..136894891,4	MCF-7	breast:
6	chr9:136889377..136892336-chr9:136904315..136908613,4	MCF-7	breast:
7	chr9:136888985..136892489-chr9:136929943..136933995,5	K562	blood:
8	chr9:136891192..136895857-chr9:136919376..136921931,6	MCF-7	breast:
9	chr9:136856335..136860882-chr9:136888369..136892368,8	MCF-7	breast:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-WDR5-3	chr9:136892273-136892384	ENSG00000235106

No data

Variant related genes	Relation type
LINC00094	TF binding region
ENSG00000160293	Chromatin interaction
ENSG00000235138	Chromatin interaction
ENSG00000235106	Chromatin interaction
ENSG00000169925	Chromatin interaction

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10114627	1.00[ASW][hapmap];0.82[LWK][hapmap];1.00[MKK][hapmap];0.83[YRI][hapmap];0.89[AFR][1000 genomes]
rs10993899	0.86[YRI][hapmap];0.89[AFR][1000 genomes]
rs12339071	0.85[AFR][1000 genomes]
rs12349629	0.89[AFR][1000 genomes]
rs12350016	0.87[AFR][1000 genomes]
rs12350803	0.91[AFR][1000 genomes]
rs12351241	0.94[AFR][1000 genomes]
rs28421307	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:30 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894125	chr9:136723520-136931957	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv894128	chr9:136753246-136906752	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv894130	chr9:136767346-136906752	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
4	nsv831748	chr9:136788484-136944326	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
5	nsv894131	chr9:136792765-136906752	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
6	nsv831749	chr9:136809200-136915764	Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
7	nsv894132	chr9:136813341-136950691	Active TSS Genic enhancers Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
8	nsv428226	chr9:136825035-136994606	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
9	nsv894134	chr9:136839840-136892523	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS 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	21 gene(s)	inside rSNPs	diseases
10	nsv894135	chr9:136839840-136927657	Strong transcription Enhancers Genic enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
11	nsv894136	chr9:136839840-136938961	Flanking Active TSS Active TSS Enhancers Bivalent Enhancer Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
12	nsv894137	chr9:136839840-136950691	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
13	nsv894138	chr9:136839840-137093168	Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
14	nsv825148	chr9:136848471-137025632	Flanking Bivalent TSS/Enh Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
15	nsv894139	chr9:136863932-136950691	Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
16	nsv894140	chr9:136865879-136927657	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
17	nsv894141	chr9:136865879-136938961	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
18	nsv894142	chr9:136870787-136906752	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
19	nsv466627	chr9:136870787-136938961	Enhancers Flanking Active TSS Genic enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
20	nsv615774	chr9:136870787-136938961	Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
21	nsv1048571	chr9:136872166-137265444	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
22	nsv894143	chr9:136874066-136906752	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
23	nsv894144	chr9:136874066-136909261	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
24	nsv894145	chr9:136874066-136925451	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
25	nsv894146	chr9:136874066-136938961	Strong transcription Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
26	nsv894147	chr9:136874066-136950691	Enhancers Genic enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
27	nsv894148	chr9:136874066-137093168	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
28	nsv894149	chr9:136874158-136950691	Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
29	nsv894150	chr9:136887757-136944827	ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
30	nsv894151	chr9:136887757-137397609	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:136891000-136898200	Weak transcription	Small Intestine	intestine
2	chr9:136891400-136892400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr9:136891400-136895800	Weak transcription	Aorta	Aorta
4	chr9:136891600-136893000	Genic enhancers	Fetal Muscle Leg	muscle
5	chr9:136891600-136893800	Weak transcription	Lung	lung
6	chr9:136891600-136894400	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr9:136891600-136895800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr9:136891600-136895800	Weak transcription	Left Ventricle	heart
9	chr9:136891600-136895800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr9:136891600-136895800	Weak transcription	HUVEC	blood vessel
11	chr9:136891600-136896000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr9:136891600-136896800	Weak transcription	A549	lung
13	chr9:136891600-136898200	Weak transcription	NHEK	skin
14	chr9:136891600-136899400	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr9:136891600-136899400	Weak transcription	K562	blood
16	chr9:136891600-136899800	Weak transcription	Stomach Mucosa	stomach
17	chr9:136891600-136900200	Weak transcription	Right Atrium	heart
18	chr9:136891600-136904200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr9:136891600-136912400	Weak transcription	Psoas Muscle	Psoas
20	chr9:136891800-136892400	Genic enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr9:136891800-136892400	Weak transcription	Primary T helper cells fromperipheralblood	blood
22	chr9:136891800-136892400	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr9:136891800-136892400	Enhancers	Dnd41	blood
24	chr9:136891800-136892600	Weak transcription	Fetal Thymus	thymus
25	chr9:136891800-136893000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr9:136891800-136893200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:136891800-136893400	Weak transcription	Adipose Nuclei	Adipose
28	chr9:136891800-136893800	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr9:136891800-136893800	Weak transcription	Primary T cells from cord blood	blood
30	chr9:136891800-136893800	Weak transcription	Esophagus	oesophagus
31	chr9:136891800-136893800	Weak transcription	Fetal Intestine Large	intestine
32	chr9:136891800-136893800	Weak transcription	Rectal Smooth Muscle	rectum
33	chr9:136891800-136894000	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr9:136891800-136894000	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr9:136891800-136894200	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr9:136891800-136894600	Weak transcription	Colonic Mucosa	Colon
37	chr9:136891800-136894800	Strong transcription	NHLF	lung
38	chr9:136891800-136895000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr9:136891800-136895200	Weak transcription	Placenta Amnion	Placenta Amnion
40	chr9:136891800-136895800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr9:136891800-136895800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr9:136891800-136895800	Weak transcription	HSMM	muscle
43	chr9:136891800-136896000	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr9:136891800-136896200	Weak transcription	Colon Smooth Muscle	Colon
45	chr9:136891800-136896400	Weak transcription	Brain Substantia Nigra	brain
46	chr9:136891800-136896600	Weak transcription	Muscle Satellite Cultured Cells	--
47	chr9:136891800-136897000	Weak transcription	HSMMtube	muscle
48	chr9:136891800-136897800	Weak transcription	Primary B cells from cord blood	blood
49	chr9:136891800-136898000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr9:136891800-136898200	Weak transcription	GM12878-XiMat	blood

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