Variant report

Variant	rs10206099
Chromosome Location	chr2:173045386-173045387
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:173044550..173046275-chr2:173093097..173095044,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10172507	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10203383	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10208791	0.87[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs11898349	0.87[AMR][1000 genomes]
rs1386351	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1386352	0.86[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1386353	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1825750	0.86[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs34085702	0.86[ASN][1000 genomes]
rs6743245	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6751272	0.87[AMR][1000 genomes]
rs6751564	0.95[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[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	nsv875413	chr2:173009413-173097343	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	esv2762294	chr2:173028656-173071270	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173042600-173045600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:173042800-173046400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr2:173043000-173046800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr2:173043200-173046600	Weak transcription	Hela-S3	cervix
5	chr2:173043600-173045400	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr2:173043800-173045400	Enhancers	Primary T helper naive cells from peripheral blood	blood
7	chr2:173044000-173045600	Enhancers	Primary T cells fromperipheralblood	blood
8	chr2:173044200-173046200	Weak transcription	Fetal Thymus	thymus
9	chr2:173044200-173046400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr2:173044200-173046400	Weak transcription	Thymus	Thymus
11	chr2:173044400-173045800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
12	chr2:173044400-173046200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr2:173044400-173046200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr2:173044400-173046400	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr2:173044800-173046000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr2:173044800-173046000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr2:173045000-173046000	Weak transcription	Primary T cells from cord blood	blood
18	chr2:173045000-173046200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr2:173045000-173046400	Weak transcription	Primary T helper cells fromperipheralblood	blood
20	chr2:173045000-173046400	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr2:173045000-173046600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr2:173045200-173045400	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
23	chr2:173045200-173045400	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
24	chr2:173045200-173045400	Enhancers	Spleen	Spleen
25	chr2:173045200-173045600	Weak transcription	Primary T helper cells PMA-I stimulated	--
26	chr2:173045200-173046600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr2:173045200-173047200	Enhancers	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links