Variant report

Variant	rs7925288
Chromosome Location	chr11:92912550-92912551
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10466352	0.81[GIH][hapmap];0.81[JPT][hapmap]
rs10765587	0.82[CHD][hapmap];0.86[GIH][hapmap];0.81[JPT][hapmap];0.86[MKK][hapmap]
rs10765593	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10830988	0.81[GIH][hapmap];0.87[JPT][hapmap];0.86[MKK][hapmap]
rs10830989	0.84[GIH][hapmap];0.81[JPT][hapmap];0.86[MKK][hapmap]
rs10830996	0.82[CHD][hapmap];0.84[GIH][hapmap];0.81[JPT][hapmap];0.86[MKK][hapmap]
rs10831010	0.83[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.82[TSI][hapmap];0.80[EUR][1000 genomes]
rs10831016	0.93[CHB][hapmap];0.82[JPT][hapmap]
rs10831017	0.93[CHB][hapmap];0.82[JPT][hapmap]
rs11020195	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11020234	0.93[CHB][hapmap];0.82[JPT][hapmap]
rs11020235	0.93[CHB][hapmap];0.82[JPT][hapmap]
rs12803876	0.83[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap]
rs1348871	0.81[JPT][hapmap]
rs1446920	0.93[CHB][hapmap];0.82[JPT][hapmap]
rs1508608	0.82[CHD][hapmap];0.84[GIH][hapmap];0.81[JPT][hapmap]
rs16918625	0.81[YRI][hapmap]
rs1992803	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2121468	1.00[CEU][hapmap];0.93[CHB][hapmap];0.91[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4753436	0.81[CHD][hapmap];0.84[GIH][hapmap];0.81[JPT][hapmap];0.86[MKK][hapmap]
rs55818036	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039134	chr11:92790000-93219942	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv898176	chr11:92877533-92965312	Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv898177	chr11:92877533-92971874	Strong transcription Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv898178	chr11:92881933-92949447	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv898179	chr11:92881933-92956873	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv1047828	chr11:92886648-92915055	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1045544	chr11:92889187-92915055	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1041794	chr11:92893654-92915055	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv818858	chr11:92898342-92932229	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
10	esv2757465	chr11:92898342-92934137	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
11	esv2759853	chr11:92898342-92934137	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7925288	SLC36A4	cis	multi-tissue	Pritchard

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:92868400-92914600	Weak transcription	Brain Substantia Nigra	brain
2	chr11:92877800-92915000	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr11:92889800-92913600	Weak transcription	Spleen	Spleen
4	chr11:92891600-92925400	Weak transcription	Fetal Heart	heart
5	chr11:92891800-92929800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr11:92895400-92920000	Weak transcription	Psoas Muscle	Psoas
7	chr11:92895400-92921400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr11:92897200-92914000	Weak transcription	Small Intestine	intestine
9	chr11:92897800-92917200	Weak transcription	NHDF-Ad	bronchial
10	chr11:92898200-92919800	Weak transcription	Brain Angular Gyrus	brain
11	chr11:92898200-92920000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr11:92900600-92929600	Weak transcription	HUVEC	blood vessel
13	chr11:92909800-92912600	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
14	chr11:92909800-92914600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr11:92910000-92912600	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr11:92910000-92912600	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
17	chr11:92910000-92912600	ZNF genes & repeats	Primary hematopoietic stem cells short term culture	blood
18	chr11:92910000-92912600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr11:92910000-92912600	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr11:92910000-92912600	ZNF genes & repeats	Brain Germinal Matrix	brain
21	chr11:92910000-92912800	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
22	chr11:92910000-92912800	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
23	chr11:92910000-92913000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
24	chr11:92910000-92913000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr11:92910000-92913200	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr11:92910000-92913200	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
27	chr11:92910000-92913600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr11:92910000-92913800	ZNF genes & repeats	Dnd41	blood
29	chr11:92910000-92915000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
30	chr11:92910200-92913200	ZNF genes & repeats	Fetal Brain Female	brain
31	chr11:92910200-92913800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr11:92910200-92914000	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr11:92910400-92912600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr11:92910400-92912600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
35	chr11:92910400-92912600	Strong transcription	Skeletal Muscle Female	skeletal muscle
36	chr11:92910400-92912800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr11:92910400-92912800	ZNF genes & repeats	Fetal Muscle Leg	muscle
38	chr11:92910400-92913000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr11:92910400-92913000	Strong transcription	Primary T cells from cord blood	blood
40	chr11:92910400-92913200	Strong transcription	Liver	Liver
41	chr11:92910400-92913200	Strong transcription	Brain Cingulate Gyrus	brain
42	chr11:92910400-92913200	Strong transcription	Brain Hippocampus Middle	brain
43	chr11:92910600-92912600	Strong transcription	Left Ventricle	heart
44	chr11:92910600-92912600	Strong transcription	Ovary	ovary
45	chr11:92910600-92912600	Strong transcription	Placenta Amnion	Placenta Amnion
46	chr11:92910600-92913000	Strong transcription	Rectal Mucosa Donor 29	rectum
47	chr11:92910600-92914000	Strong transcription	Adipose Nuclei	Adipose
48	chr11:92910600-92914400	Strong transcription	Primary T helper cells fromperipheralblood	blood
49	chr11:92910800-92912600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
50	chr11:92910800-92912800	Strong transcription	Primary T cells fromperipheralblood	blood

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