Variant report

Variant	rs2290321
Chromosome Location	chr15:35168056-35168057
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10519964	1.00[ASW][hapmap];0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.90[MEX][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11858672	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12594085	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12900893	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12901859	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12903600	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17237191	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs2123050	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2293126	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3858931	0.96[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.98[TSI][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4924309	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4924338	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4924370	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7168306	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7169701	1.00[ASW][hapmap];0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs717941	1.00[ASW][hapmap];1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8040333	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv457106	chr15:35049787-35227613	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv569153	chr15:35049787-35227613	Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv2761865	chr15:35101678-35271639	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv832967	chr15:35110102-35267906	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv904071	chr15:35150897-35250771	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv904072	chr15:35150897-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv569154	chr15:35165366-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35140400-35221600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:35142600-35180200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr15:35142600-35185200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:35145200-35198200	Weak transcription	Colonic Mucosa	Colon
5	chr15:35145600-35184600	Strong transcription	Monocytes-CD14+_RO01746	blood
6	chr15:35145800-35185400	Weak transcription	Psoas Muscle	Psoas
7	chr15:35146400-35175400	Weak transcription	Small Intestine	intestine
8	chr15:35146600-35184800	Strong transcription	Primary T helper cells fromperipheralblood	blood
9	chr15:35146600-35185200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr15:35146800-35183200	Strong transcription	Primary B cells from peripheral blood	blood
11	chr15:35146800-35185200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr15:35146800-35185200	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr15:35147000-35168200	Strong transcription	HUES48 Cell Line	embryonic stem cell
14	chr15:35148200-35185400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr15:35148400-35175200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr15:35149800-35184400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
17	chr15:35150200-35172400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr15:35150400-35170000	Weak transcription	Thymus	Thymus
19	chr15:35150400-35185200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr15:35152200-35184400	Weak transcription	Stomach Mucosa	stomach
21	chr15:35153800-35184400	Weak transcription	Fetal Heart	heart
22	chr15:35153800-35185200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:35154000-35170000	Weak transcription	Pancreas	Pancrea
24	chr15:35154000-35178200	Weak transcription	NHLF	lung
25	chr15:35154000-35185200	Weak transcription	Gastric	stomach
26	chr15:35154000-35185600	Weak transcription	Fetal Brain Male	brain
27	chr15:35155200-35184400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
28	chr15:35155400-35170000	Weak transcription	Fetal Stomach	stomach
29	chr15:35156400-35170400	Strong transcription	Rectal Mucosa Donor 29	rectum
30	chr15:35156800-35184800	Strong transcription	HSMM	muscle
31	chr15:35157200-35168200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr15:35157600-35185200	Weak transcription	Aorta	Aorta
33	chr15:35157600-35185200	Weak transcription	Esophagus	oesophagus
34	chr15:35157800-35185200	Weak transcription	Spleen	Spleen
35	chr15:35159600-35184800	Strong transcription	Primary neutrophils fromperipheralblood	blood
36	chr15:35160000-35171000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr15:35160400-35168400	Strong transcription	Primary T helper cells PMA-I stimulated	--
38	chr15:35161000-35170600	Strong transcription	Primary T cells fromperipheralblood	blood
39	chr15:35161800-35168600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
40	chr15:35161800-35170000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr15:35161800-35170600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr15:35161800-35170600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
43	chr15:35161800-35175000	Weak transcription	Brain Substantia Nigra	brain
44	chr15:35161800-35178200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
45	chr15:35161800-35178800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
46	chr15:35161800-35179400	Weak transcription	Brain Cingulate Gyrus	brain
47	chr15:35161800-35185200	Weak transcription	Brain Angular Gyrus	brain
48	chr15:35161800-35185200	Weak transcription	Right Ventricle	heart
49	chr15:35162000-35170000	Weak transcription	Stomach Smooth Muscle	stomach
50	chr15:35162000-35175600	Weak transcription	Brain Hippocampus Middle	brain

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