Variant report

Variant	rs2871993
Chromosome Location	chr19:35947890-35947891
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:35925274..35928182-chr19:35946950..35949729,2	MCF-7	breast:
2	chr19:35705153..35708046-chr19:35947064..35948602,2	MCF-7	breast:
3	chr19:35928198..35930798-chr19:35945495..35948169,2	MCF-7	breast:
4	chr19:35942991..35944995-chr19:35947715..35949889,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000232680	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs12973353	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12975762	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2005682	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2005683	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2158007	0.86[AFR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34536858	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
4	nsv833810	chr19:35782588-35971959	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases
5	nsv833811	chr19:35850257-36029535	Enhancers Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 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	chr19:35938200-35949800	Weak transcription	Right Atrium	heart
2	chr19:35940800-35948600	Weak transcription	Fetal Intestine Small	intestine
3	chr19:35940800-35948800	Weak transcription	Small Intestine	intestine
4	chr19:35941000-35949800	Weak transcription	Gastric	stomach
5	chr19:35941400-35948600	Weak transcription	Fetal Intestine Large	intestine
6	chr19:35941400-35949600	Weak transcription	Spleen	Spleen
7	chr19:35941600-35949800	Weak transcription	Lung	lung
8	chr19:35941600-35970200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr19:35942600-35948400	Weak transcription	Adipose Nuclei	Adipose
10	chr19:35942800-35948200	Weak transcription	Primary T cells from cord blood	blood
11	chr19:35943000-35948200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr19:35943000-35948200	Weak transcription	Fetal Thymus	thymus
13	chr19:35943000-35952400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr19:35943200-35951800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr19:35945400-35948000	Enhancers	GM12878-XiMat	blood
16	chr19:35945400-35949400	Enhancers	Primary neutrophils fromperipheralblood	blood
17	chr19:35945800-35948800	Weak transcription	Stomach Mucosa	stomach
18	chr19:35945800-35948800	Enhancers	HepG2	liver
19	chr19:35946000-35950400	Weak transcription	Brain Anterior Caudate	brain
20	chr19:35946200-35949600	Enhancers	Primary B cells from cord blood	blood
21	chr19:35946400-35949800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
22	chr19:35946600-35955200	Enhancers	Primary B cells from peripheral blood	blood
23	chr19:35946800-35948000	Weak transcription	Liver	Liver
24	chr19:35946800-35948600	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr19:35946800-35951800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr19:35947000-35948000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr19:35947000-35948200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
28	chr19:35947000-35948600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr19:35947000-35949600	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr19:35947000-35949600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr19:35947200-35948000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
32	chr19:35947200-35948400	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr19:35947200-35948600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr19:35947200-35948600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr19:35947200-35949600	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr19:35947200-35949800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
37	chr19:35947200-35952000	Weak transcription	Primary T helper cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links