Variant report

Variant	rs2281935
Chromosome Location	chr9:72769097-72769098
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KLF9-1	chr9:72768050-72769157	ENSG00000204706.6
2	lnc-KLF9-1	chr9:72769064-72769157	ENSG00000204706.6
3	lnc-KLF9-1	chr9:72768050-72769157	NONHSAT131800
4	lnc-KLF9-1	chr9:72769064-72769157	ENSG00000204706.10

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1007127	0.80[ASN][1000 genomes]
rs10119662	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10125617	0.86[JPT][hapmap]
rs10481740	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10481741	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10735583	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10780811	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10868720	0.87[CEU][hapmap];0.86[JPT][hapmap]
rs10868799	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10868801	0.87[JPT][hapmap]
rs10868806	0.85[JPT][hapmap]
rs11142350	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1536956	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap]
rs1927106	0.89[ASN][1000 genomes]
rs1927115	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1927128	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1927129	0.82[EUR][1000 genomes]
rs1927137	0.80[EUR][1000 genomes]
rs1927139	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2026136	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2148861	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2182739	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2209779	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2309611	0.95[CEU][hapmap]
rs2309633	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2309642	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2975862	0.85[ASN][1000 genomes]
rs2975890	0.89[ASN][1000 genomes]
rs2975907	0.83[ASN][1000 genomes]
rs2975908	0.82[ASN][1000 genomes]
rs2975910	0.82[ASN][1000 genomes]
rs2975915	0.82[ASN][1000 genomes]
rs2975917	0.82[ASN][1000 genomes]
rs2997664	0.82[ASN][1000 genomes]
rs2997676	0.82[ASN][1000 genomes]
rs2997677	0.82[ASN][1000 genomes]
rs2997678	0.82[ASN][1000 genomes]
rs3015168	0.82[ASN][1000 genomes]
rs3015224	0.84[ASN][1000 genomes]
rs3015232	0.80[ASN][1000 genomes]
rs3015238	0.82[ASN][1000 genomes]
rs3015242	0.82[ASN][1000 genomes]
rs4375070	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs4744968	0.80[ASN][1000 genomes]
rs4744977	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4744978	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4745000	0.86[JPT][hapmap]
rs6560019	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7027209	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1047862	chr9:72746875-73138287	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats 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	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72726800-72785200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr9:72727000-72776200	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr9:72741600-72775400	Weak transcription	Adipose Nuclei	Adipose
4	chr9:72741600-72789400	Weak transcription	Spleen	Spleen
5	chr9:72750400-72771600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:72751000-72771800	Weak transcription	Aorta	Aorta
7	chr9:72752000-72779600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr9:72752400-72775200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr9:72752600-72771400	Weak transcription	NH-A	brain
10	chr9:72753800-72770000	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr9:72758800-72772200	Weak transcription	Colonic Mucosa	Colon
12	chr9:72759200-72774400	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr9:72759600-72800000	Weak transcription	Right Ventricle	heart
14	chr9:72759800-72774000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr9:72759800-72792200	Weak transcription	HMEC	breast
16	chr9:72760000-72785200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr9:72762800-72770000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr9:72763200-72769800	Weak transcription	Psoas Muscle	Psoas
19	chr9:72763400-72770800	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr9:72766200-72769200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr9:72766200-72785200	Weak transcription	Left Ventricle	heart
22	chr9:72767000-72770000	Weak transcription	Ovary	ovary
23	chr9:72767000-72770400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr9:72767000-72775400	Weak transcription	Right Atrium	heart
25	chr9:72767400-72769400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr9:72767400-72769800	Weak transcription	HSMMtube	muscle
27	chr9:72767400-72780200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr9:72767600-72774200	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr9:72767800-72770000	Weak transcription	Colon Smooth Muscle	Colon
30	chr9:72767800-72774600	Weak transcription	Fetal Stomach	stomach
31	chr9:72768400-72770800	Strong transcription	HSMM	muscle
32	chr9:72768400-72773600	Weak transcription	Rectal Smooth Muscle	rectum
33	chr9:72768600-72769200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr9:72768600-72769400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr9:72768600-72780200	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr9:72768800-72769400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
37	chr9:72768800-72770000	Strong transcription	Stomach Smooth Muscle	stomach
38	chr9:72769000-72772200	Weak transcription	NHDF-Ad	bronchial
39	chr9:72769000-72776000	Weak transcription	HUES48 Cell Line	embryonic stem cell

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