Variant report

Variant	rs10496958
Chromosome Location	chr2:144901700-144901701
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:144899258..144902330-chr2:144902942..144905642,3	K562	blood:

Variant related genes	Relation type
ENSG00000121964	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10496955	0.81[ASW][hapmap]
rs10496959	0.94[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10496960	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823383	1.00[MEX][hapmap]
rs16823389	1.00[MEX][hapmap]
rs16823456	0.81[ASW][hapmap];0.87[LWK][hapmap];0.82[MKK][hapmap]
rs16823477	0.81[ASW][hapmap];0.82[LWK][hapmap]
rs16823483	0.81[ASW][hapmap];0.87[LWK][hapmap];0.83[MKK][hapmap]
rs16823490	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823495	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823497	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823498	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823501	0.90[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823512	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823515	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823517	0.90[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823525	0.90[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823539	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823540	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823544	1.00[MEX][hapmap];1.00[AMR][1000 genomes]
rs16823552	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823556	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823563	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16823564	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16855310	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2042997	1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6430049	0.81[ASW][hapmap];0.87[LWK][hapmap];0.83[MKK][hapmap]
rs6430051	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6430052	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6709167	0.81[ASW][hapmap];0.82[LWK][hapmap]
rs6727568	1.00[MEX][hapmap]
rs6733058	0.81[ASW][hapmap];0.87[LWK][hapmap];0.83[MKK][hapmap]
rs6736292	0.81[ASW][hapmap];0.82[LWK][hapmap]
rs6746667	0.81[ASW][hapmap]
rs6760118	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006237	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006270	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006274	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006276	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006286	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006287	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006289	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006290	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006297	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006298	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73006302	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008204	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008206	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008211	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008212	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008213	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008221	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008238	1.00[AMR][1000 genomes]
rs73008245	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008248	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73008250	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7559704	1.00[MEX][hapmap]
rs7565007	1.00[MEX][hapmap]
rs7571370	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7575019	1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7576684	1.00[MEX][hapmap]
rs7585915	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7586117	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7595013	1.00[ASW][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.90[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][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	nsv532755	chr2:144631279-145270874	Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1006344	chr2:144657716-145334899	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv535951	chr2:144657716-145334899	Enhancers Strong transcription Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv1067624	chr2:144657717-145425705	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	nsv531413	chr2:144657717-145425705	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	nsv532756	chr2:144746353-145315596	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv1005376	chr2:144803630-144968946	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1013338	chr2:144806920-144969818	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv1008032	chr2:144840552-145234229	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
10	nsv834396	chr2:144842187-145019465	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv963932	chr2:144899453-144903814	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:144870200-144909000	Weak transcription	Psoas Muscle	Psoas
2	chr2:144871600-144903200	Weak transcription	Left Ventricle	heart
3	chr2:144873800-144901800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr2:144874800-144913200	Weak transcription	Fetal Lung	lung
5	chr2:144877200-144903200	Weak transcription	Ovary	ovary
6	chr2:144883200-144908000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr2:144891600-144902400	Weak transcription	Fetal Brain Male	brain
8	chr2:144891800-144917400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr2:144892000-144903000	Weak transcription	Primary T cells from cord blood	blood
10	chr2:144892200-144914400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr2:144895800-144902400	Weak transcription	HSMMtube	muscle
12	chr2:144895800-144910000	Weak transcription	NH-A	brain
13	chr2:144896400-144909800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr2:144900400-144902400	Enhancers	Primary monocytes fromperipheralblood	blood
15	chr2:144900400-144903000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
16	chr2:144900800-144903200	Active TSS	Right Atrium	heart
17	chr2:144900800-144903800	Weak transcription	Fetal Muscle Leg	muscle
18	chr2:144901000-144902000	Enhancers	Primary B cells from cord blood	blood
19	chr2:144901000-144902000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr2:144901000-144902000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr2:144901200-144901800	Enhancers	Primary hematopoietic stem cells	blood
22	chr2:144901200-144901800	Enhancers	Fetal Kidney	kidney
23	chr2:144901200-144901800	Enhancers	Osteobl	bone
24	chr2:144901200-144902200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr2:144901400-144901800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr2:144901400-144901800	Enhancers	Adipose Nuclei	Adipose
27	chr2:144901400-144901800	Enhancers	Rectal Mucosa Donor 31	rectum
28	chr2:144901400-144902000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr2:144901400-144902000	Enhancers	Primary neutrophils fromperipheralblood	blood
30	chr2:144901600-144901800	Enhancers	Primary B cells from peripheral blood	blood
31	chr2:144901600-144902000	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr2:144901600-144902000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr2:144901600-144905200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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