Variant report

Variant	rs11711935
Chromosome Location	chr3:99808804-99808805
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:99796671..99799694-chr3:99807406..99810771,4	K562	blood:
2	chr3:99807492..99809231-chr3:99979831..99982167,2	K562	blood:
3	chr3:99808255..99810946-chr3:99815200..99817983,2	MCF-7	breast:
4	chr10:74033613..74034145-chr3:99808677..99809315,2	NB4	blood:
5	chr3:99536338..99538401-chr3:99807558..99809928,2	K562	blood:
6	chr3:99807984..99809965-chr3:99822463..99825380,2	MCF-7	breast:
7	chr3:99806279..99809036-chr3:99909487..99911239,2	K562	blood:
8	chr3:99807438..99810251-chr3:99824386..99825972,2	K562	blood:
9	chr3:99802054..99805861-chr3:99806768..99808957,3	K562	blood:
10	chr3:99796671..99799492-chr3:99807406..99809668,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000184220	Chromatin interaction
ENSG00000036054	Chromatin interaction
ENSG00000168209	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs16841874	0.83[LWK][hapmap];0.90[MKK][hapmap]
rs4244712	0.96[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.83[MEX][hapmap];0.93[TSI][hapmap]
rs4928153	0.81[MKK][hapmap]
rs4928230	0.81[LWK][hapmap];0.90[MKK][hapmap]
rs6788750	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];0.95[MEX][hapmap];0.96[MKK][hapmap];0.91[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6805884	0.91[CEU][hapmap]
rs7650727	0.87[MKK][hapmap]
rs793439	0.81[LWK][hapmap];0.90[MKK][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817478	chr3:99474086-99955548	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv916476	chr3:99478229-100124625	Active TSS Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv869848	chr3:99652246-99904276	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv932634	chr3:99660690-99888854	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1010579	chr3:99660754-99901817	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1008483	chr3:99660754-99903769	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
7	nsv1010897	chr3:99660754-99904783	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1001529	chr3:99661758-99892654	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
9	nsv536665	chr3:99661758-99892654	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
10	nsv591148	chr3:99774720-99905803	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs11711935	C3orf26	cis	multi-tissue	Pritchard
rs11711935	C3orf26	Cis_1M	lymphoblastoid	RTeQTL
rs11711935	OR5H6	cis	cerebellum	SCAN
rs11711935	SENP7	cis	parietal	SCAN

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99793800-99809800	Weak transcription	Fetal Muscle Trunk	muscle
2	chr3:99795800-99866600	Weak transcription	Primary T cells from cord blood	blood
3	chr3:99804000-99809000	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr3:99805000-99809600	Enhancers	Muscle Satellite Cultured Cells	--
5	chr3:99806200-99809800	Enhancers	NHDF-Ad	bronchial
6	chr3:99806200-99816000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:99806200-99818600	Weak transcription	HSMM	muscle
8	chr3:99806600-99812600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr3:99806800-99809400	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr3:99806800-99809600	Enhancers	ES-I3 Cell Line	embryonic stem cell
11	chr3:99806800-99809800	Enhancers	HepG2	liver
12	chr3:99807000-99809800	Enhancers	H1 Cell Line	embryonic stem cell
13	chr3:99807000-99809800	Enhancers	HUES48 Cell Line	embryonic stem cell
14	chr3:99807200-99809600	Enhancers	iPS-15b Cell Line	embryonic stem cell
15	chr3:99807400-99809200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr3:99807400-99809200	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr3:99807400-99809400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:99807400-99809400	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr3:99807400-99810600	Enhancers	A549	lung
20	chr3:99807600-99809600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:99807800-99809400	Weak transcription	Liver	Liver
22	chr3:99807800-99810400	Enhancers	Primary neutrophils fromperipheralblood	blood
23	chr3:99808000-99809200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
24	chr3:99808000-99809400	Enhancers	HUES64 Cell Line	embryonic stem cell
25	chr3:99808000-99809600	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr3:99808000-99809600	Enhancers	iPS-20b Cell Line	embryonic stem cell
27	chr3:99808400-99809400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr3:99808400-99809400	Flanking Active TSS	K562	blood
29	chr3:99808400-99809800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:99808400-99809800	Enhancers	Primary hematopoietic stem cells short term culture	blood
31	chr3:99808400-99809800	Enhancers	Osteobl	bone
32	chr3:99808600-99809200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
33	chr3:99808600-99809200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr3:99808600-99809200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr3:99808600-99809200	Enhancers	Primary hematopoietic stem cells	blood
36	chr3:99808600-99809200	Enhancers	HUVEC	blood vessel
37	chr3:99808600-99809400	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr3:99808600-99809400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr3:99808600-99809600	Enhancers	Ovary	ovary
40	chr3:99808600-99809800	Enhancers	Adipose Nuclei	Adipose
41	chr3:99808600-99809800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr3:99808600-99809800	Enhancers	Fetal Kidney	kidney
43	chr3:99808600-99809800	Enhancers	Psoas Muscle	Psoas
44	chr3:99808600-99809800	Enhancers	NH-A	brain
45	chr3:99808600-99809800	Enhancers	NHLF	lung
46	chr3:99808800-99809000	Enhancers	Aorta	Aorta
47	chr3:99808800-99809200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr3:99808800-99809200	Enhancers	H9 Cell Line	embryonic stem cell
49	chr3:99808800-99809200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
50	chr3:99808800-99809200	Enhancers	Duodenum Smooth Muscle	Duodenum

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