Variant report

Variant	rs9883677
Chromosome Location	chr3:150810545-150810546
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:150807677..150811549-chr3:150812693..150816960,6	MCF-7	breast:
2	chr3:150806580..150808484-chr3:150808871..150811631,2	K562	blood:
3	chr3:150808254..150810835-chr3:150814904..150817365,3	MCF-7	breast:
4	chr3:150802650..150804518-chr3:150809655..150811683,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000144893	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10755104	0.81[JPT][hapmap]
rs10935827	0.81[JPT][hapmap]
rs10935828	0.81[JPT][hapmap]
rs11914598	0.81[JPT][hapmap]
rs13434276	0.86[CEU][hapmap];0.95[EUR][1000 genomes]
rs1346943	1.00[CEU][hapmap];0.81[CHD][hapmap];0.94[GIH][hapmap];0.81[JPT][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs16863172	0.81[JPT][hapmap]
rs1835668	0.81[JPT][hapmap]
rs1897296	0.81[JPT][hapmap]
rs2014240	0.81[JPT][hapmap]
rs58990954	0.91[EUR][1000 genomes]
rs6414377	0.81[JPT][hapmap]
rs6765711	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6767918	0.81[JPT][hapmap]
rs6772640	0.81[JPT][hapmap]
rs6787683	0.81[JPT][hapmap]
rs965843	0.97[EUR][1000 genomes]
rs9683109	0.81[JPT][hapmap]
rs970235	1.00[CEU][hapmap];0.94[GIH][hapmap];0.81[JPT][hapmap];0.98[TSI][hapmap];0.96[EUR][1000 genomes]
rs9850016	0.96[CEU][hapmap];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915879	chr3:150607390-150860207	Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv829756	chr3:150692636-150889738	Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
5	esv2753152	chr3:150773248-150810545	Bivalent/Poised TSS Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv877648	chr3:150792444-150895145	Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs9883677	DHX36	cis	parietal	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150805400-150812000	Weak transcription	Thymus	Thymus
2	chr3:150805600-150811400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:150805600-150811600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:150805800-150811200	Weak transcription	Fetal Intestine Small	intestine
5	chr3:150806000-150814400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr3:150806600-150819000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr3:150806800-150812000	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr3:150806800-150814000	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr3:150806800-150817800	Weak transcription	Brain Cingulate Gyrus	brain
10	chr3:150807400-150811000	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr3:150807800-150811000	Weak transcription	Primary hematopoietic stem cells	blood
12	chr3:150807800-150811200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
13	chr3:150807800-150818400	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr3:150808000-150811000	Weak transcription	Brain Substantia Nigra	brain
15	chr3:150808000-150814200	Weak transcription	Fetal Muscle Leg	muscle
16	chr3:150809000-150810600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr3:150809000-150811800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
18	chr3:150809200-150811800	Enhancers	Brain Anterior Caudate	brain
19	chr3:150809400-150811200	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr3:150809400-150812000	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr3:150809400-150812200	Enhancers	iPS-20b Cell Line	embryonic stem cell
22	chr3:150809400-150812200	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr3:150809600-150810800	Enhancers	H1 Cell Line	embryonic stem cell
24	chr3:150809600-150813600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr3:150809800-150812200	Enhancers	H9 Cell Line	embryonic stem cell
26	chr3:150809800-150827400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr3:150810000-150814200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
28	chr3:150810200-150810600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr3:150810200-150815600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr3:150810400-150812000	Enhancers	iPS-18 Cell Line	embryonic stem cell

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