Variant report

Variant	rs73945530
Chromosome Location	chr2:86099368-86099369
allele	A/G
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	chr2:86099302-86099798	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:86098331..86101203-chr2:86132798..86134488,2	K562	blood:
2	chr2:86098928..86100914-chr2:86276090..86278051,2	MCF-7	breast:

Variant related genes	Relation type
ST3GAL5	TF binding region

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11891333	0.82[EUR][1000 genomes]
rs17026666	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17026701	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17026729	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4292089	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55716007	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs55967160	0.91[AMR][1000 genomes]
rs57150081	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs57178127	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58515922	1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs58672934	0.96[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs58686314	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59968392	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs60981340	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs61477982	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6547646	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6705122	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6717839	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6718632	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6747424	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6759489	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs735737	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73943909	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73945523	0.95[AFR][1000 genomes]
rs73945524	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73945535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7570836	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]

No data

Chromatin state (count:81 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:86066000-86106200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:86075400-86114000	Weak transcription	Aorta	Aorta
3	chr2:86079600-86106200	Weak transcription	Brain Germinal Matrix	brain
4	chr2:86081000-86112400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr2:86081600-86100600	Weak transcription	NHDF-Ad	bronchial
6	chr2:86086800-86113000	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr2:86087400-86101800	Weak transcription	Fetal Brain Female	brain
8	chr2:86088400-86105400	Weak transcription	Osteobl	bone
9	chr2:86088600-86111600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr2:86089000-86102600	Weak transcription	Primary hematopoietic stem cells	blood
11	chr2:86089800-86100000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr2:86089800-86106000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr2:86089800-86106000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr2:86090400-86099800	Weak transcription	Spleen	Spleen
15	chr2:86090400-86102600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr2:86090400-86104600	Weak transcription	Liver	Liver
17	chr2:86090600-86109000	Weak transcription	Fetal Stomach	stomach
18	chr2:86090600-86110600	Weak transcription	Fetal Muscle Trunk	muscle
19	chr2:86091400-86101400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr2:86092200-86105200	Weak transcription	Right Atrium	heart
21	chr2:86093200-86106200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr2:86093400-86104600	Weak transcription	Ovary	ovary
23	chr2:86093400-86105800	Weak transcription	Rectal Mucosa Donor 31	rectum
24	chr2:86093400-86106200	Weak transcription	Duodenum Mucosa	Duodenum
25	chr2:86093400-86106800	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr2:86093400-86112400	Weak transcription	Colonic Mucosa	Colon
27	chr2:86093600-86111600	Weak transcription	Colon Smooth Muscle	Colon
28	chr2:86093800-86106000	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr2:86093800-86113000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr2:86094000-86103200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr2:86094000-86105400	Weak transcription	NH-A	brain
32	chr2:86094400-86101400	Weak transcription	Primary T helper cells fromperipheralblood	blood
33	chr2:86094800-86101400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
34	chr2:86094800-86105400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr2:86094800-86106000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
36	chr2:86095000-86102000	Strong transcription	Primary T cells from cord blood	blood
37	chr2:86095000-86103400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr2:86095200-86102600	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr2:86095200-86102800	Weak transcription	Primary T helper cells PMA-I stimulated	--
40	chr2:86095400-86104000	Weak transcription	A549	lung
41	chr2:86096200-86108400	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr2:86096800-86107600	Enhancers	Brain Hippocampus Middle	brain
43	chr2:86097000-86104400	Weak transcription	Pancreatic Islets	Pancreatic Islet
44	chr2:86097200-86099800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr2:86097200-86100600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr2:86097200-86102600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
47	chr2:86097400-86102800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr2:86097600-86099400	Weak transcription	Primary B cells from cord blood	blood
49	chr2:86097600-86099800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr2:86097600-86099800	Weak transcription	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links