Variant report

Variant	rs34289746
Chromosome Location	chr9:116109669-116109670
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:116106104..116109704-chr9:116111339..116114258,3	K562	blood:
2	chr9:116108733..116111186-chr9:116118329..116120582,2	MCF-7	breast:
3	chr9:116108849..116110601-chr9:116170239..116173217,2	K562	blood:
4	chr9:116108846..116117047-chr9:116126327..116140994,30	MCF-7	breast:
5	chr9:116038056..116040048-chr9:116108621..116111534,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000119431	Chromatin interaction
ENSG00000119411	Chromatin interaction
ENSG00000157653	Chromatin interaction
ENSG00000148229	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10817477	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10981714	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10981718	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10981719	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10981721	0.84[AMR][1000 genomes]
rs10981725	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10981734	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10981736	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10981754	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12350131	0.82[ASN][1000 genomes]
rs12684385	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13289574	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16932083	0.81[EUR][1000 genomes]
rs16932730	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16932806	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2296075	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2296076	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28480972	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34294772	1.00[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34429100	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34749539	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35275471	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35772163	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35852964	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35860025	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35915957	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3810920	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59841233	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs61161242	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71503561	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7850003	0.86[EUR][1000 genomes]

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	nsv530949	chr9:115821128-116487796	Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh 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	71 gene(s)	inside rSNPs	diseases
2	nsv1042663	chr9:115920158-116167140	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv893744	chr9:115934852-116170227	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs34289746	WDR31	cis	Esophagus Mucosa	GTEx

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:116103000-116111800	Weak transcription	Lung	lung
2	chr9:116103200-116110000	Weak transcription	Right Atrium	heart
3	chr9:116103200-116111400	Weak transcription	Stomach Mucosa	stomach
4	chr9:116103200-116111400	Weak transcription	GM12878-XiMat	blood
5	chr9:116105800-116110200	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr9:116105800-116111400	Enhancers	Fetal Intestine Small	intestine
7	chr9:116105800-116111400	Weak transcription	Right Ventricle	heart
8	chr9:116106200-116111400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr9:116106400-116110400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr9:116106600-116110000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr9:116106600-116111400	Weak transcription	Liver	Liver
12	chr9:116106600-116111400	Weak transcription	Esophagus	oesophagus
13	chr9:116106600-116111400	Weak transcription	Pancreas	Pancrea
14	chr9:116106600-116111800	Weak transcription	K562	blood
15	chr9:116107600-116111600	Weak transcription	Colon Smooth Muscle	Colon
16	chr9:116107800-116110000	Weak transcription	Primary hematopoietic stem cells	blood
17	chr9:116107800-116110000	Weak transcription	Small Intestine	intestine
18	chr9:116107800-116111200	Weak transcription	Rectal Smooth Muscle	rectum
19	chr9:116108000-116110000	Weak transcription	Duodenum Mucosa	Duodenum
20	chr9:116108000-116110000	Weak transcription	Fetal Heart	heart
21	chr9:116108000-116111400	Weak transcription	Brain Anterior Caudate	brain
22	chr9:116108000-116111600	Weak transcription	Brain Angular Gyrus	brain
23	chr9:116108000-116112000	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr9:116108200-116111200	Weak transcription	Brain Cingulate Gyrus	brain
25	chr9:116108200-116112000	Weak transcription	Brain Substantia Nigra	brain
26	chr9:116108600-116109800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr9:116108600-116111400	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr9:116108800-116111400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr9:116108800-116111400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr9:116108800-116111800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr9:116109000-116110000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr9:116109400-116110000	Enhancers	Colonic Mucosa	Colon
33	chr9:116109600-116110200	Enhancers	Fetal Intestine Large	intestine
34	chr9:116109600-116111400	Enhancers	Rectal Mucosa Donor 29	rectum

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