Variant report

Variant	rs35875194
Chromosome Location	chr19:36543858-36543859
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr19:36543834-36547376	SK-N-SH	brain:	n/a	n/a

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:36497884..36507784-chr19:36542079..36547610,17	MCF-7	breast:
2	chr19:36484527..36490376-chr19:36543488..36547183,11	K562	blood:
3	chr19:36543278..36547003-chr19:36629856..36633093,3	MCF-7	breast:
4	chr19:36543835..36550918-chr19:36603651..36608049,11	MCF-7	breast:
5	chr19:36543201..36546500-chr19:36630161..36633757,3	MCF-7	breast:
6	chr19:36496294..36501686-chr19:36543356..36547257,9	MCF-7	breast:
7	chr19:36543772..36546988-chr19:36561665..36565427,3	MCF-7	breast:
8	chr19:36333824..36336431-chr19:36543842..36546200,2	MCF-7	breast:
9	chr19:36502189..36508386-chr19:36540645..36546835,9	MCF-7	breast:

No data

Variant related genes	Relation type
WDR62	TF binding region
ENSG00000126247	Chromatin interaction
ENSG00000105261	Chromatin interaction
ENSG00000161270	Chromatin interaction
ENSG00000267698	Chromatin interaction
ENSG00000105254	Chromatin interaction
ENSG00000181392	Chromatin interaction
ENSG00000105258	Chromatin interaction
ENSG00000205138	Chromatin interaction
ENSG00000075702	Chromatin interaction
ENSG00000239382	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10407011	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10414877	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10420353	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10421966	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10423651	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10425692	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12462432	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12462632	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12462674	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12972490	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12976505	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12976812	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12977814	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12978482	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12981654	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17639286	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2023865	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2239510	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs35125548	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3826995	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4461192	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56034793	0.98[ASN][1000 genomes]
rs62109743	0.98[ASN][1000 genomes]
rs71337524	0.83[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs721542	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7245762	0.94[ASN][1000 genomes]
rs7250448	0.80[ASN][1000 genomes]
rs7257383	0.94[ASN][1000 genomes]
rs7259592	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7260609	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs8103569	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[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	esv3526489	chr19:36306483-36741945	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
2	esv3526490	chr19:36306483-36741945	Genic enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases
3	esv1831737	chr19:36324324-36690874	Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
4	nsv833815	chr19:36519803-36624936	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:36506400-36544400	Weak transcription	GM12878-XiMat	blood
2	chr19:36515400-36544600	Weak transcription	Pancreas	Pancrea
3	chr19:36524200-36544000	Weak transcription	Primary B cells from cord blood	blood
4	chr19:36524200-36544400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr19:36524200-36544400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr19:36524200-36544400	Weak transcription	Aorta	Aorta
7	chr19:36524400-36544000	Weak transcription	Fetal Lung	lung
8	chr19:36526400-36544200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr19:36526600-36544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr19:36526800-36544400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr19:36527000-36544600	Weak transcription	Gastric	stomach
12	chr19:36528400-36544000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr19:36528600-36544000	Weak transcription	Primary hematopoietic stem cells	blood
14	chr19:36528600-36544000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr19:36528600-36544400	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr19:36528600-36544400	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr19:36530400-36544200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr19:36530400-36544400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr19:36530600-36544000	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr19:36530600-36544400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr19:36531000-36544000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr19:36531000-36544000	Weak transcription	Esophagus	oesophagus
23	chr19:36531200-36544000	Weak transcription	Duodenum Mucosa	Duodenum
24	chr19:36531400-36544000	Weak transcription	Spleen	Spleen
25	chr19:36533000-36544600	Weak transcription	Lung	lung
26	chr19:36533200-36544200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr19:36533200-36544400	Weak transcription	Fetal Heart	heart
28	chr19:36533200-36544400	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr19:36533400-36544600	Weak transcription	Ovary	ovary
30	chr19:36533800-36544400	Weak transcription	A549	lung
31	chr19:36535200-36544000	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr19:36537800-36544000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr19:36537800-36544200	Weak transcription	Right Ventricle	heart
34	chr19:36537800-36544600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr19:36538000-36544400	Weak transcription	Brain Hippocampus Middle	brain
36	chr19:36540200-36544400	Weak transcription	NHEK	skin
37	chr19:36540400-36544400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
38	chr19:36540800-36544200	Weak transcription	HMEC	breast
39	chr19:36542000-36544000	Enhancers	HepG2	liver
40	chr19:36542400-36544400	Weak transcription	Brain Angular Gyrus	brain
41	chr19:36542600-36544400	Weak transcription	Brain Anterior Caudate	brain
42	chr19:36542600-36544600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr19:36542800-36544000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr19:36542800-36544400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr19:36542800-36544400	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr19:36542800-36544400	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr19:36542800-36544400	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr19:36542800-36544400	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr19:36542800-36544400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
50	chr19:36542800-36544400	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links