Variant report

Variant	rs12029929
Chromosome Location	chr1:210708692-210708693
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	chr1:210701301..210703665-chr1:210706894..210708903,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10779535	0.96[ASN][1000 genomes]
rs10779536	0.91[ASN][1000 genomes]
rs10779537	0.91[ASN][1000 genomes]
rs10863842	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10863843	0.82[ASN][1000 genomes]
rs11119527	0.95[ASN][1000 genomes]
rs11119535	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11119536	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11119537	0.91[ASN][1000 genomes]
rs11119539	0.80[ASN][1000 genomes]
rs12033957	0.91[ASN][1000 genomes]
rs12034950	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12075603	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12079415	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12125970	0.85[ASN][1000 genomes]
rs12126012	0.89[ASN][1000 genomes]
rs12403873	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12404948	0.85[ASN][1000 genomes]
rs12405221	0.83[ASN][1000 genomes]
rs17016393	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17016400	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2069151	0.83[ASN][1000 genomes]
rs2069153	0.85[ASN][1000 genomes]
rs2069154	0.83[ASN][1000 genomes]
rs2069155	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4845044	0.95[ASN][1000 genomes]
rs4845045	0.95[ASN][1000 genomes]
rs4845046	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4845047	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4845048	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4845049	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4845050	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4845051	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4845052	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873148	chr1:210665583-210994339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv549106	chr1:210698719-210736508	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1011702	chr1:210706323-210739030	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv988198	chr1:210707300-210716552	Enhancers Weak transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210674400-210719600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:210680600-210731000	Weak transcription	HSMM	muscle
3	chr1:210700800-210708800	Weak transcription	Fetal Muscle Leg	muscle
4	chr1:210700800-210709200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr1:210704000-210709400	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr1:210704200-210708800	Weak transcription	Brain Germinal Matrix	brain
7	chr1:210706600-210708800	Weak transcription	Fetal Heart	heart
8	chr1:210708200-210710200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr1:210708200-210711000	Enhancers	HSMMtube	muscle
10	chr1:210708400-210708800	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr1:210708400-210709200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr1:210708400-210710000	Enhancers	ES-I3 Cell Line	embryonic stem cell
13	chr1:210708400-210710000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr1:210708400-210710000	Enhancers	HUES6 Cell Line	embryonic stem cell
15	chr1:210708400-210710200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
16	chr1:210708400-210710400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr1:210708600-210710000	Enhancers	iPS-20b Cell Line	embryonic stem cell
18	chr1:210708600-210710200	Enhancers	H9 Cell Line	embryonic stem cell
19	chr1:210708600-210710200	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr1:210708600-210710400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr1:210708600-210710400	Enhancers	Fetal Brain Male	brain

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