Variant report

Variant	rs2255464
Chromosome Location	chr8:99045978-99045979
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr8:99044015..99047319-chr8:99128831..99131004,3	MCF-7	breast:
2	chr8:99045231..99047027-chr8:99117010..99119612,2	MCF-7	breast:
3	chr8:98884431..98886188-chr8:99045640..99048054,2	MCF-7	breast:
4	chr8:99032274..99033861-chr8:99045862..99047865,2	MCF-7	breast:
5	chr8:98882384..98885458-chr8:99044615..99046951,3	MCF-7	breast:
6	chr8:98974372..98976072-chr8:99045013..99046832,2	K562	blood:
7	chr8:99045803..99047373-chr8:99047761..99049281,2	K562	blood:

Variant related genes	Relation type
ENSG00000132561	Chromatin interaction
ENSG00000104356	Chromatin interaction
ENSG00000132541	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1466428	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1965914	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2034779	0.90[JPT][hapmap]
rs2248014	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs2444873	0.86[ASN][1000 genomes]
rs2444892	0.95[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs2513809	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2513810	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2513811	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2513852	0.85[CHD][hapmap]
rs2615	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1032904	chr8:98756076-99476925	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv539687	chr8:98756076-99476925	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:99021200-99053600	Weak transcription	A549	lung
2	chr8:99022400-99055200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr8:99024000-99054800	Weak transcription	Right Ventricle	heart
4	chr8:99024200-99055000	Weak transcription	Fetal Brain Male	brain
5	chr8:99024200-99056000	Weak transcription	Spleen	Spleen
6	chr8:99025000-99052800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr8:99029000-99053600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr8:99030600-99053400	Weak transcription	Pancreas	Pancrea
9	chr8:99030600-99056800	Weak transcription	Aorta	Aorta
10	chr8:99030800-99046400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr8:99031000-99055400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr8:99032400-99046800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr8:99033800-99054800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr8:99033800-99055200	Weak transcription	Small Intestine	intestine
15	chr8:99033800-99055600	Weak transcription	Left Ventricle	heart
16	chr8:99034200-99050800	Weak transcription	Colon Smooth Muscle	Colon
17	chr8:99034200-99054200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr8:99034200-99054800	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr8:99035400-99047200	Strong transcription	Fetal Muscle Trunk	muscle
20	chr8:99035600-99046000	Strong transcription	Fetal Muscle Leg	muscle
21	chr8:99036000-99047400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr8:99036400-99048600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr8:99036800-99053200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr8:99037200-99049200	Weak transcription	Brain Anterior Caudate	brain
25	chr8:99037200-99053200	Weak transcription	Fetal Intestine Small	intestine
26	chr8:99037600-99052400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
27	chr8:99037600-99054800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
28	chr8:99037600-99056400	Weak transcription	Lung	lung
29	chr8:99038000-99047200	Strong transcription	Placenta Amnion	Placenta Amnion
30	chr8:99039000-99048800	Strong transcription	Duodenum Mucosa	Duodenum
31	chr8:99039200-99053000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr8:99040200-99048600	Weak transcription	NHLF	lung
33	chr8:99040400-99046800	Strong transcription	Primary B cells from peripheral blood	blood
34	chr8:99040400-99047000	Strong transcription	Primary T cells from cord blood	blood
35	chr8:99041200-99048800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr8:99041400-99053600	Weak transcription	Psoas Muscle	Psoas
37	chr8:99041600-99046600	Weak transcription	Ovary	ovary
38	chr8:99041600-99051400	Weak transcription	Rectal Smooth Muscle	rectum
39	chr8:99041800-99046000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr8:99042400-99053000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr8:99042600-99046600	Strong transcription	Cortex derived primary cultured neurospheres	brain
42	chr8:99042600-99046600	Strong transcription	Brain Hippocampus Middle	brain
43	chr8:99042600-99047200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr8:99042600-99048800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr8:99042800-99046200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr8:99042800-99046200	Strong transcription	Adipose Nuclei	Adipose
47	chr8:99042800-99046400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr8:99043200-99047000	Strong transcription	Primary monocytes fromperipheralblood	blood
49	chr8:99043200-99047000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
50	chr8:99043200-99047200	Strong transcription	Dnd41	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links