Variant report

Variant	rs35788849
Chromosome Location	chr15:29139212-29139213
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs11634235	0.81[ASN][1000 genomes]
rs11635766	0.84[ASN][1000 genomes]
rs12439426	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12442340	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12443452	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs171200	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1908610	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1908611	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1908612	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1908613	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1966538	0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1966539	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1966540	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1966541	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1967143	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1971524	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1971525	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2339437	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2339438	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35661710	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35852411	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3893819	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4986793	0.80[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56746941	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59026480	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs62006250	0.84[ASN][1000 genomes]
rs7162028	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7162353	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7166218	0.89[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7168232	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7177479	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7179229	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7179877	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs72724807	0.80[AFR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8030674	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8031520	0.82[EUR][1000 genomes]
rs8032401	0.80[AFR][1000 genomes];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8033247	0.82[EUR][1000 genomes]
rs8037683	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949391	chr15:28969665-29554915	Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
2	nsv915833	chr15:28989650-29641211	Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1045052	chr15:29085643-29683847	Enhancers Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
4	nsv542286	chr15:29085643-29683847	Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription 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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:29132200-29144800	Weak transcription	Gastric	stomach
2	chr15:29132400-29142000	Weak transcription	NHLF	lung
3	chr15:29133400-29140200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr15:29133600-29141800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr15:29134000-29141200	Enhancers	Primary T cells fromperipheralblood	blood
6	chr15:29134400-29142000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:29134400-29144600	Weak transcription	Spleen	Spleen
8	chr15:29134600-29139800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr15:29134600-29140800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr15:29135000-29140600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr15:29135000-29141400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr15:29135000-29149600	Weak transcription	Brain Hippocampus Middle	brain
13	chr15:29135400-29139600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr15:29135800-29139400	Weak transcription	Fetal Brain Male	brain
15	chr15:29136600-29140000	Enhancers	Primary T cells from cord blood	blood
16	chr15:29136600-29142000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr15:29136800-29140400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:29136800-29143200	Weak transcription	Fetal Thymus	thymus
19	chr15:29136800-29156400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr15:29137000-29150400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
21	chr15:29138400-29141800	Weak transcription	Muscle Satellite Cultured Cells	--
22	chr15:29138400-29143600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
23	chr15:29138600-29140400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr15:29138600-29140600	Weak transcription	K562	blood
25	chr15:29138600-29141800	Weak transcription	A549	lung
26	chr15:29138600-29146600	Weak transcription	Brain Cingulate Gyrus	brain
27	chr15:29138600-29149000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr15:29138600-29149200	Weak transcription	Fetal Brain Female	brain
29	chr15:29138800-29139800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
30	chr15:29138800-29140000	Weak transcription	Brain Germinal Matrix	brain
31	chr15:29138800-29140200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr15:29138800-29141600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr15:29138800-29146200	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr15:29138800-29146600	Weak transcription	Brain Angular Gyrus	brain
35	chr15:29138800-29148200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
36	chr15:29138800-29150000	Weak transcription	Pancreas	Pancrea
37	chr15:29139000-29139400	Weak transcription	Primary T helper cells PMA-I stimulated	--
38	chr15:29139000-29139400	Weak transcription	Primary T helper cells fromperipheralblood	blood
39	chr15:29139000-29139400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

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