Variant report

Variant	rs2924377
Chromosome Location	chr5:93157266-93157267
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10062291	1.00[ASN][1000 genomes]
rs10066088	1.00[CEU][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10066323	1.00[CEU][hapmap];0.84[LWK][hapmap];0.88[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10070314	1.00[ASN][1000 genomes]
rs10076457	1.00[ASN][1000 genomes]
rs1026280	1.00[CEU][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1026281	1.00[CEU][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1031422	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10476595	1.00[ASN][1000 genomes]
rs10514378	1.00[CEU][hapmap];0.83[LWK][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10866759	1.00[ASW][hapmap];1.00[CEU][hapmap];0.97[LWK][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11135399	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12653528	0.83[MKK][hapmap]
rs1372037	1.00[CEU][hapmap];0.87[YRI][hapmap];0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1453002	1.00[CEU][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1453003	0.84[YRI][hapmap]
rs17083315	1.00[CEU][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17083337	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[LWK][hapmap];0.88[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17083377	0.84[LWK][hapmap];0.92[MKK][hapmap];0.96[YRI][hapmap]
rs1869277	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1982439	0.96[YRI][hapmap]
rs2045020	0.84[LWK][hapmap];0.81[MKK][hapmap]
rs2119449	1.00[ASW][hapmap];0.83[LWK][hapmap];0.88[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2344918	1.00[ASW][hapmap];1.00[CEU][hapmap];0.91[LWK][hapmap];0.88[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2345364	1.00[ASN][1000 genomes]
rs2924374	0.84[LWK][hapmap];0.92[MKK][hapmap];0.96[YRI][hapmap]
rs2924375	1.00[ASW][hapmap];1.00[CEU][hapmap];0.89[LWK][hapmap];0.88[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35147150	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4242233	1.00[ASW][hapmap];1.00[CEU][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4380636	1.00[CEU][hapmap];0.97[LWK][hapmap];0.88[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4607342	1.00[CEU][hapmap];0.97[LWK][hapmap];0.88[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4869203	1.00[CEU][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4869204	1.00[CEU][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4869205	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4869208	1.00[ASN][1000 genomes]
rs57046989	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57881693	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6556835	0.82[EUR][1000 genomes]
rs6556838	0.82[LWK][hapmap]
rs6556839	0.84[LWK][hapmap]
rs6868462	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6868481	1.00[ASN][1000 genomes]
rs6873825	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6874223	1.00[CEU][hapmap];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6893023	1.00[CEU][hapmap];0.97[LWK][hapmap];0.88[MKK][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6894989	1.00[ASN][1000 genomes]
rs73137117	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73137123	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73137126	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73137133	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73137142	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7710880	1.00[CEU][hapmap];0.88[MEX][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7713956	0.84[YRI][hapmap]
rs7715555	1.00[CEU][hapmap];0.96[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7723944	0.84[ASW][hapmap];1.00[CEU][hapmap];0.88[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7729237	0.84[ASW][hapmap];1.00[CEU][hapmap];0.83[LWK][hapmap];0.88[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap];0.83[YRI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7730993	0.84[ASW][hapmap];1.00[CEU][hapmap];0.88[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9314089	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[LWK][hapmap];0.88[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9314090	1.00[CEU][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9314091	0.88[MEX][hapmap];0.95[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532196	chr5:92933949-93573527	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv830405	chr5:93086825-93258518	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv882384	chr5:93136661-93380123	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:93101200-93164200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr5:93109200-93159600	Weak transcription	Thymus	Thymus
3	chr5:93111400-93159000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr5:93111600-93179800	Weak transcription	Left Ventricle	heart
5	chr5:93120200-93161800	Weak transcription	Primary B cells from peripheral blood	blood
6	chr5:93131200-93179200	Weak transcription	Ovary	ovary
7	chr5:93132600-93157800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr5:93137000-93165400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
9	chr5:93137000-93168400	Weak transcription	Pancreas	Pancrea
10	chr5:93137000-93168600	Weak transcription	Fetal Stomach	stomach
11	chr5:93137200-93160600	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr5:93137200-93160800	Weak transcription	Primary hematopoietic stem cells	blood
13	chr5:93137200-93166800	Weak transcription	HSMM	muscle
14	chr5:93137600-93180400	Weak transcription	Fetal Lung	lung
15	chr5:93142000-93157600	Weak transcription	Primary T cells from cord blood	blood
16	chr5:93143200-93180000	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr5:93146800-93180200	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr5:93147400-93179800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr5:93148800-93160400	Weak transcription	Adipose Nuclei	Adipose
20	chr5:93149400-93157600	Weak transcription	Primary T helper cells PMA-I stimulated	--
21	chr5:93149400-93160400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr5:93149400-93161000	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr5:93151800-93164800	Weak transcription	Primary B cells from cord blood	blood
24	chr5:93153800-93160200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr5:93153800-93166800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr5:93154800-93160000	Weak transcription	Dnd41	blood
27	chr5:93155000-93159000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr5:93155000-93159000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr5:93155600-93158800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr5:93155800-93157600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr5:93155800-93160400	Weak transcription	Fetal Intestine Small	intestine
32	chr5:93156200-93157600	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr5:93156400-93159000	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr5:93156400-93167000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr5:93156600-93158000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr5:93156600-93169200	Weak transcription	Skeletal Muscle Male	skeletal muscle
37	chr5:93156800-93158400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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