Variant report

Variant	rs1927127
Chromosome Location	chr9:72784765-72784766
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KLF9-1	chr9:72784559-72786040	ENSG00000204706.6
2	lnc-KLF9-1	chr9:72784559-72786040	ENSG00000204706.6
3	lnc-KLF9-1	chr9:72784558-72786040	ENSG00000204706.10

Extended variants
information (count: 162 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:161)

rs_ID	r²[population]
rs10114223	0.85[AFR][1000 genomes]
rs10116027	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10116549	0.90[AFR][1000 genomes]
rs10125117	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10125454	0.86[AFR][1000 genomes]
rs10126027	0.90[AFR][1000 genomes]
rs1012992	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1012993	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10435957	0.83[ASN][1000 genomes]
rs10732697	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1073540	0.92[CHB][hapmap]
rs10746819	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10780851	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10780866	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10780869	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10780870	0.93[AFR][1000 genomes]
rs10780871	0.94[AFR][1000 genomes]
rs10780898	0.84[ASN][1000 genomes]
rs10868741	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10868807	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10868808	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1112937	1.00[YRI][hapmap]
rs11141917	0.87[AFR][1000 genomes]
rs11142242	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11142348	0.96[YRI][hapmap]
rs11142354	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11142356	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11142363	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11142367	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11142368	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11142370	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11142371	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11142373	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11142374	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1180078	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1180079	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1180082	1.00[YRI][hapmap]
rs1180086	1.00[YRI][hapmap]
rs1180087	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1180091	0.96[YRI][hapmap]
rs1180094	1.00[YRI][hapmap]
rs1180098	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1180099	0.96[YRI][hapmap]
rs1180101	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1180102	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1180103	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1180104	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1180105	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1180106	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1180107	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1180112	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180114	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180115	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180117	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180118	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180120	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180122	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180124	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180125	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1180126	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1180127	1.00[YRI][hapmap]
rs1180128	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1180132	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1180133	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11998951	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12005666	0.83[ASN][1000 genomes]
rs12006212	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12156606	0.94[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12236327	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12377677	0.92[AFR][1000 genomes]
rs12380844	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17052443	0.92[CHB][hapmap]
rs1887452	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1927091	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1927092	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1927093	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1927098	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1927118	0.90[AFR][1000 genomes]
rs1927120	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1927121	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1927122	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1927124	0.91[AFR][1000 genomes]
rs1927125	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1927126	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1927130	0.94[AFR][1000 genomes]
rs1927132	0.94[AFR][1000 genomes]
rs1927133	0.94[AFR][1000 genomes]
rs1927134	0.94[AFR][1000 genomes]
rs1927135	0.94[AFR][1000 genomes]
rs1927136	0.94[AFR][1000 genomes]
rs1927140	0.85[AFR][1000 genomes]
rs1927143	0.82[AFR][1000 genomes]
rs1927146	0.84[YRI][hapmap]
rs1927148	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs1986067	0.86[AFR][1000 genomes]
rs2026137	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2148863	0.83[AFR][1000 genomes]
rs2148866	0.90[AFR][1000 genomes]
rs2148867	0.91[AFR][1000 genomes]
rs2148868	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2182731	0.92[ASN][1000 genomes]
rs2182735	1.00[YRI][hapmap]
rs2182740	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2182741	0.91[AFR][1000 genomes]
rs2183362	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2209781	0.83[AFR][1000 genomes]
rs2309632	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2309634	0.94[AFR][1000 genomes]
rs2309636	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2309644	1.00[YRI][hapmap]
rs2768644	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2768645	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2768649	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2773362	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2871291	0.87[ASN][1000 genomes]
rs2871293	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2871296	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4322072	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4378025	0.88[ASN][1000 genomes]
rs4449855	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4531114	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744591	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744984	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4744986	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4744994	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4744995	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4744997	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4744998	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56059804	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56345723	0.94[ASN][1000 genomes]
rs58720670	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58881692	0.84[ASN][1000 genomes]
rs61531415	0.81[EUR][1000 genomes]
rs6560016	0.91[AFR][1000 genomes]
rs6560018	0.94[AFR][1000 genomes]
rs6560059	0.80[ASN][1000 genomes]
rs6560060	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66658020	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7024117	0.91[AFR][1000 genomes]
rs7034322	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7041843	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7047789	1.00[YRI][hapmap]
rs73454795	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7852005	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7853298	0.83[AFR][1000 genomes]
rs7854735	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7856528	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7857214	0.90[ASN][1000 genomes]
rs7857292	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7858389	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7858988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7860729	0.91[AFR][1000 genomes]
rs7867727	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7868564	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7875514	0.89[ASN][1000 genomes]
rs8181178	0.85[ASN][1000 genomes]
rs8181179	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs943536	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs943539	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs943540	0.83[JPT][hapmap];0.80[YRI][hapmap]
rs9696790	0.82[ASN][1000 genomes]

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:40 , 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	chr9:72741600-72789400	Weak transcription	Spleen	Spleen
3	chr9:72759600-72800000	Weak transcription	Right Ventricle	heart
4	chr9:72759800-72792200	Weak transcription	HMEC	breast
5	chr9:72760000-72785200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr9:72766200-72785200	Weak transcription	Left Ventricle	heart
7	chr9:72775200-72800000	Weak transcription	Esophagus	oesophagus
8	chr9:72775800-72785200	Weak transcription	Adipose Nuclei	Adipose
9	chr9:72776800-72791800	Weak transcription	Fetal Lung	lung
10	chr9:72777000-72792400	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr9:72777200-72784800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr9:72777400-72789400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
13	chr9:72777800-72785200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr9:72777800-72785400	Weak transcription	Ovary	ovary
15	chr9:72777800-72800000	Weak transcription	Fetal Stomach	stomach
16	chr9:72778400-72785400	Weak transcription	Aorta	Aorta
17	chr9:72779200-72789600	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr9:72779200-72792400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:72780400-72796000	Weak transcription	Fetal Muscle Leg	muscle
20	chr9:72780400-72800000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr9:72780600-72785200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr9:72780600-72785200	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr9:72780600-72785600	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr9:72780600-72787600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr9:72780600-72791400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr9:72780600-72801400	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr9:72780600-72803600	Weak transcription	Skeletal Muscle Female	skeletal muscle
28	chr9:72780800-72791600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr9:72782800-72784800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr9:72782800-72785000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr9:72783000-72792000	Strong transcription	HSMMtube	muscle
32	chr9:72783600-72786200	Strong transcription	HSMM	muscle
33	chr9:72783600-72789800	Strong transcription	Colon Smooth Muscle	Colon
34	chr9:72783600-72792400	Weak transcription	Pancreas	Pancrea
35	chr9:72783600-72793600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr9:72783600-72794000	Strong transcription	Stomach Smooth Muscle	stomach
37	chr9:72783800-72786000	Strong transcription	NH-A	brain
38	chr9:72783800-72801600	Weak transcription	Rectal Mucosa Donor 29	rectum
39	chr9:72784400-72793000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr9:72784600-72802000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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