Variant report

Variant	rs55841613
Chromosome Location	chr2:151702435-151702436
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:151342790..151344508-chr2:151701178..151703599,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000115963	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs10170910	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10173993	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10180526	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10210373	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10803827	0.90[EUR][1000 genomes]
rs10930290	0.89[EUR][1000 genomes]
rs10930291	0.90[EUR][1000 genomes]
rs10930292	0.88[EUR][1000 genomes]
rs1155617	0.90[EUR][1000 genomes]
rs1160182	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12466447	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12473533	0.90[EUR][1000 genomes]
rs13000995	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13029146	0.90[EUR][1000 genomes]
rs13031920	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13033752	0.90[EUR][1000 genomes]
rs13410272	0.81[ASN][1000 genomes]
rs1401798	0.90[EUR][1000 genomes]
rs1401799	0.90[EUR][1000 genomes]
rs1401800	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1519755	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1519769	0.90[EUR][1000 genomes]
rs1519770	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1519773	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1519774	0.90[EUR][1000 genomes]
rs1519775	0.90[EUR][1000 genomes]
rs1519776	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1519779	0.88[EUR][1000 genomes]
rs1519780	0.89[EUR][1000 genomes]
rs1519781	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1541436	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1813728	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1829481	0.94[EUR][1000 genomes]
rs1850879	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1850880	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1914989	0.93[EUR][1000 genomes]
rs1949524	0.90[EUR][1000 genomes]
rs1949525	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1985540	0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2097935	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2190374	0.90[EUR][1000 genomes]
rs2190377	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2214896	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4141070	0.90[EUR][1000 genomes]
rs4141071	0.90[EUR][1000 genomes]
rs4368330	0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4664762	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6432985	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6432993	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6432994	0.90[EUR][1000 genomes]
rs6432995	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6705775	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6715480	0.88[EUR][1000 genomes]
rs6716109	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6717780	0.90[EUR][1000 genomes]
rs6729783	0.88[EUR][1000 genomes]
rs6730701	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6738258	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6747106	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6753674	0.90[EUR][1000 genomes]
rs6758550	0.92[EUR][1000 genomes]
rs7421622	0.96[EUR][1000 genomes]
rs7564415	0.90[EUR][1000 genomes]
rs7567248	0.89[EUR][1000 genomes]
rs7576195	0.90[EUR][1000 genomes]
rs7576640	0.90[EUR][1000 genomes]
rs7584633	0.90[EUR][1000 genomes]
rs886769	0.90[EUR][1000 genomes]
rs917239	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs957744	0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs968878	0.90[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1001838	chr2:150819672-151745876	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv535980	chr2:150819672-151745876	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	esv2757836	chr2:151457277-151844210	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	esv2759096	chr2:151457277-151844210	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
5	esv2756950	chr2:151502539-151749973	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1010993	chr2:151535786-151742522	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	esv35134	chr2:151542492-151741492	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv875286	chr2:151685251-151731950	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:151698800-151702800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr2:151701000-151706000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr2:151702000-151704600	Enhancers	iPS-20b Cell Line	embryonic stem cell
4	chr2:151702200-151706000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr2:151702400-151704800	Enhancers	H9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links