Variant report

Variant	rs855864
Chromosome Location	chr1:159025407-159025408
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr1:159023373-159027389	GM18505	blood:	n/a	n/a
2	POLR2A	chr1:159024754-159026187	U87	brain:	n/a	n/a
3	POLR2A	chr1:159023796-159027402	GM12878	blood:	n/a	n/a
4	POLR2A	chr1:159024878-159025536	GM12892	blood:	n/a	n/a
5	POLR2A	chr1:159025064-159025454	GM12891	blood:	n/a	n/a
6	SPI1	chr1:159025115-159025591	HL-60	blood:	n/a	n/a
7	POLR2A	chr1:159024920-159025448	GM12891	blood:	n/a	n/a
8	POLR2A	chr1:159025152-159025647	HL-60	blood:	n/a	n/a
9	POLR2A	chr1:159024908-159025537	GM12892	blood:	n/a	n/a
10	POLR2A	chr1:159024904-159025549	GM12892	blood:	n/a	n/a
11	POLR2A	chr1:159024964-159027320	GM18951	blood:	n/a	n/a
12	POLR2A	chr1:159024904-159025487	GM12891	blood:	n/a	n/a
13	POLR2A	chr1:159024789-159025490	U87	brain:	n/a	n/a
14	SPI1	chr1:159025106-159025601	HL-60	blood:	n/a	n/a
15	POLR2A	chr1:159024885-159025479	GM12878	blood:	n/a	n/a
16	POLR2A	chr1:159019870-159029996	GM12878	blood:	n/a	n/a
17	POLR2A	chr1:159024940-159025518	SK-N-MC	brain:	n/a	n/a
18	POLR2A	chr1:159024854-159025504	GM12878	blood:	n/a	n/a
19	POLR2A	chr1:159020046-159029918	GM12891	blood:	n/a	n/a
20	POLR2A	chr1:159025118-159025484	HL-60	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000265589	TF binding region

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs1417802	1.00[YRI][hapmap]
rs1622504	1.00[YRI][hapmap]
rs1633264	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs1772406	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs1856974	0.96[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv872486	chr1:158979191-159090256	Enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158982600-159027400	Weak transcription	Fetal Kidney	kidney
2	chr1:158984800-159027400	Weak transcription	Psoas Muscle	Psoas
3	chr1:158998800-159033800	Weak transcription	Fetal Brain Female	brain
4	chr1:159000000-159026200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:159001000-159027400	Weak transcription	Right Ventricle	heart
6	chr1:159001400-159036200	Weak transcription	Small Intestine	intestine
7	chr1:159001600-159028400	Strong transcription	Fetal Thymus	thymus
8	chr1:159005600-159027200	Weak transcription	Brain Angular Gyrus	brain
9	chr1:159007200-159026800	Weak transcription	Pancreas	Pancrea
10	chr1:159009000-159026400	Strong transcription	Dnd41	blood
11	chr1:159009200-159030400	Weak transcription	Stomach Smooth Muscle	stomach
12	chr1:159010600-159026400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr1:159013000-159025600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr1:159017000-159025600	Weak transcription	Colon Smooth Muscle	Colon
15	chr1:159017000-159026800	Weak transcription	Skeletal Muscle Male	skeletal muscle
16	chr1:159018000-159026000	Strong transcription	Hela-S3	cervix
17	chr1:159018200-159026200	Strong transcription	Ovary	ovary
18	chr1:159019400-159026200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr1:159019600-159026400	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr1:159019800-159026000	Strong transcription	Adipose Nuclei	Adipose
21	chr1:159020000-159026200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr1:159020000-159026200	Strong transcription	Fetal Intestine Large	intestine
23	chr1:159020200-159026000	Strong transcription	Fetal Lung	lung
24	chr1:159020200-159026800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr1:159020200-159027000	Strong transcription	Thymus	Thymus
26	chr1:159020200-159027200	Strong transcription	GM12878-XiMat	blood
27	chr1:159021200-159028400	Weak transcription	Fetal Intestine Small	intestine
28	chr1:159021400-159025600	Weak transcription	Fetal Stomach	stomach
29	chr1:159021400-159027000	Strong transcription	Rectal Smooth Muscle	rectum
30	chr1:159021800-159025600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr1:159021800-159028000	Weak transcription	Gastric	stomach
32	chr1:159022000-159025600	Weak transcription	Colonic Mucosa	Colon
33	chr1:159022200-159025800	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr1:159022400-159028800	Weak transcription	Brain Substantia Nigra	brain
35	chr1:159022600-159026000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr1:159022600-159031600	Weak transcription	Fetal Brain Male	brain
37	chr1:159022800-159025600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
38	chr1:159022800-159029600	Genic enhancers	Primary neutrophils fromperipheralblood	blood
39	chr1:159022800-159037400	Genic enhancers	Primary B cells from peripheral blood	blood
40	chr1:159023000-159025600	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr1:159023000-159026000	Strong transcription	Fetal Muscle Trunk	muscle
42	chr1:159023000-159027000	Genic enhancers	Primary B cells from cord blood	blood
43	chr1:159023200-159025600	Genic enhancers	Monocytes-CD14+_RO01746	blood
44	chr1:159023200-159026000	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr1:159023400-159025800	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
46	chr1:159023400-159026200	Strong transcription	Lung	lung
47	chr1:159023400-159026200	Genic enhancers	NHEK	skin
48	chr1:159023600-159025600	Genic enhancers	Primary T helper cells fromperipheralblood	blood
49	chr1:159023800-159025800	Enhancers	Stomach Mucosa	stomach
50	chr1:159023800-159025800	Genic enhancers	HMEC	breast

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