Variant report

Variant	rs2723253
Chromosome Location	chr2:171833910-171833911
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:171828787..171834064-chr2:172014893..172018034,9	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198586	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1035839	1.00[CEU][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.88[EUR][1000 genomes]
rs13017649	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes]
rs13028361	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13389859	1.00[CEU][hapmap]
rs16823191	0.86[TSI][hapmap]
rs16859087	1.00[CEU][hapmap]
rs16859121	1.00[CEU][hapmap]
rs16859167	1.00[CEU][hapmap]
rs16859176	1.00[CEU][hapmap]
rs16859177	1.00[CEU][hapmap]
rs1863679	0.91[CEU][hapmap]
rs2059723	0.91[CEU][hapmap];0.86[TSI][hapmap]
rs2162574	0.80[CEU][hapmap]
rs2356600	1.00[CEU][hapmap]
rs2356609	1.00[CEU][hapmap]
rs2676139	0.88[EUR][1000 genomes]
rs2676143	1.00[CEU][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.91[EUR][1000 genomes]
rs2676145	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.92[TSI][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2676158	0.84[EUR][1000 genomes]
rs2723248	0.91[CEU][hapmap]
rs2723250	1.00[CEU][hapmap]
rs2883940	1.00[CEU][hapmap]
rs4668342	0.80[CEU][hapmap]
rs4668353	0.95[EUR][1000 genomes]
rs4668356	1.00[CEU][hapmap];0.92[TSI][hapmap];0.93[EUR][1000 genomes]
rs6711510	0.93[EUR][1000 genomes]
rs6736045	1.00[CEU][hapmap]
rs6743095	0.91[EUR][1000 genomes]
rs6746413	0.95[EUR][1000 genomes]
rs6753513	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs7608813	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs966181	0.88[EUR][1000 genomes]
rs9752051	1.00[CEU][hapmap]
rs999837	0.93[EUR][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	nsv431801	chr2:171721493-171966493	ZNF genes & repeats Strong transcription Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:171830400-171842200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:171830600-171902800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr2:171830800-171839800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr2:171830800-171891400	Weak transcription	Spleen	Spleen
5	chr2:171831000-171838600	Weak transcription	Colon Smooth Muscle	Colon
6	chr2:171831000-171840000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr2:171831000-171847600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
8	chr2:171831000-171850000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr2:171831200-171838200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr2:171831200-171840400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr2:171831200-171843200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr2:171831200-171845400	Weak transcription	HMEC	breast
13	chr2:171831200-171845800	Weak transcription	Osteobl	bone
14	chr2:171831200-171847000	Weak transcription	A549	lung
15	chr2:171831200-171857400	Weak transcription	HSMMtube	muscle
16	chr2:171831400-171849400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr2:171831400-171857000	Weak transcription	NHEK	skin
18	chr2:171831400-171879200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr2:171831400-171916200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr2:171831600-171834000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr2:171831600-171835800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr2:171831600-171840000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr2:171832000-171844800	Weak transcription	GM12878-XiMat	blood
24	chr2:171832200-171838200	Weak transcription	K562	blood
25	chr2:171832600-171835600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr2:171832600-171839000	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr2:171832600-171846000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr2:171832600-171852200	Weak transcription	Fetal Intestine Small	intestine
29	chr2:171833000-171848800	Weak transcription	HepG2	liver
30	chr2:171833400-171837400	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr2:171833800-171834200	Enhancers	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links