Variant report

Variant	rs1324531
Chromosome Location	chr6:45136224-45136225
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	chr6:45119653..45122627-chr6:45134013..45136661,2	MCF-7	breast:

Extended variants
information (count: 154 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:146)

rs_ID	r²[population]
rs1023090	0.80[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs1041332	0.80[ASN][1000 genomes]
rs1080415	0.90[ASN][1000 genomes]
rs10807318	0.93[ASN][1000 genomes]
rs10807319	0.90[ASN][1000 genomes]
rs10807320	0.89[ASN][1000 genomes]
rs10948222	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11968042	0.84[ASN][1000 genomes]
rs12190261	0.81[ASN][1000 genomes]
rs12204678	0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12205071	0.82[ASN][1000 genomes]
rs12205274	0.86[ASN][1000 genomes]
rs12208023	0.82[ASN][1000 genomes]
rs12208483	0.84[ASN][1000 genomes]
rs12529946	0.86[ASN][1000 genomes]
rs1284955	0.82[ASN][1000 genomes]
rs1284961	0.95[ASN][1000 genomes]
rs1284962	0.81[ASN][1000 genomes]
rs1284964	0.81[ASN][1000 genomes]
rs1284965	0.93[ASN][1000 genomes]
rs1284967	0.81[ASN][1000 genomes]
rs1284969	1.00[ASN][1000 genomes]
rs1284972	0.85[ASN][1000 genomes]
rs1284973	0.86[ASN][1000 genomes]
rs1284975	0.86[ASN][1000 genomes]
rs1284988	0.86[ASN][1000 genomes]
rs1284992	0.87[ASN][1000 genomes]
rs1285004	0.86[ASN][1000 genomes]
rs1285013	0.98[ASN][1000 genomes]
rs1285014	0.98[ASN][1000 genomes]
rs1285019	0.95[ASN][1000 genomes]
rs1285022	0.89[ASN][1000 genomes]
rs1285023	0.89[ASN][1000 genomes]
rs1285026	0.88[ASN][1000 genomes]
rs1285033	0.80[ASN][1000 genomes]
rs1290386	0.95[ASN][1000 genomes]
rs1300126	0.86[ASN][1000 genomes]
rs1304168	0.92[ASN][1000 genomes]
rs13207575	0.82[ASN][1000 genomes]
rs1324530	0.86[ASN][1000 genomes]
rs1324532	0.84[ASN][1000 genomes]
rs1324537	0.88[ASN][1000 genomes]
rs1324540	0.89[ASN][1000 genomes]
rs1329713	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1359336	0.88[ASN][1000 genomes]
rs1411148	0.85[ASN][1000 genomes]
rs1555681	0.85[EUR][1000 genomes]
rs1581777	0.90[ASN][1000 genomes]
rs1629542	1.00[ASN][1000 genomes]
rs16873257	0.81[ASN][1000 genomes]
rs1748231	1.00[ASN][1000 genomes]
rs1748233	0.86[ASN][1000 genomes]
rs1748234	1.00[ASN][1000 genomes]
rs1748235	1.00[ASN][1000 genomes]
rs1748236	0.86[ASN][1000 genomes]
rs1748237	0.94[ASN][1000 genomes]
rs1748238	0.86[ASN][1000 genomes]
rs1748240	0.86[ASN][1000 genomes]
rs1748242	1.00[ASN][1000 genomes]
rs1797145	1.00[ASN][1000 genomes]
rs1797147	0.98[ASN][1000 genomes]
rs1886345	0.87[ASN][1000 genomes]
rs1937046	0.84[ASN][1000 genomes]
rs1937047	0.84[ASN][1000 genomes]
rs2038766	0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2093901	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2093903	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2186062	0.82[ASN][1000 genomes]
rs2396380	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2396425	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2815263	0.81[ASN][1000 genomes]
rs35817842	0.80[ASN][1000 genomes]
rs3920903	0.85[ASN][1000 genomes]
rs4352679	0.89[ASN][1000 genomes]
rs4412189	0.80[ASN][1000 genomes]
rs4714836	0.82[ASN][1000 genomes]
rs4714842	0.81[ASN][1000 genomes]
rs4714845	0.89[ASN][1000 genomes]
rs4714847	0.90[ASN][1000 genomes]
rs4714848	0.90[ASN][1000 genomes]
rs56138724	0.85[ASN][1000 genomes]
rs6458418	0.81[ASN][1000 genomes]
rs6458419	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6458420	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6458423	0.95[ASN][1000 genomes]
rs6458425	0.95[ASN][1000 genomes]
rs6458427	0.93[ASN][1000 genomes]
rs6458428	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6458430	0.93[ASN][1000 genomes]
rs6899378	0.86[ASN][1000 genomes]
rs6899845	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6901786	0.93[ASN][1000 genomes]
rs6905396	0.95[ASN][1000 genomes]
rs6923436	0.84[ASN][1000 genomes]
rs6933553	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6936475	0.86[ASN][1000 genomes]
rs6937317	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6938316	0.93[ASN][1000 genomes]
rs6941169	0.87[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7451423	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7738526	0.95[ASN][1000 genomes]
rs7739928	0.85[ASN][1000 genomes]
rs7740542	0.86[ASN][1000 genomes]
rs7743116	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7750380	0.88[ASN][1000 genomes]
rs7758031	0.82[ASN][1000 genomes]
rs7763450	0.86[ASN][1000 genomes]
rs7763973	0.80[ASN][1000 genomes]
rs7767025	0.84[ASN][1000 genomes]
rs927658	0.95[ASN][1000 genomes]
rs9296453	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9296455	0.89[ASN][1000 genomes]
rs9349309	0.82[ASN][1000 genomes]
rs9349313	0.89[ASN][1000 genomes]
rs9349315	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9357469	0.80[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9357470	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9357471	0.84[EUR][1000 genomes]
rs9357478	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9357480	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9367214	0.82[ASN][1000 genomes]
rs9369530	0.82[ASN][1000 genomes]
rs9369533	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9369534	0.88[ASN][1000 genomes]
rs9369552	0.81[EUR][1000 genomes]
rs9381361	0.80[ASN][1000 genomes]
rs9381364	0.88[ASN][1000 genomes]
rs9381365	0.87[ASN][1000 genomes]
rs9381366	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9381373	0.93[ASN][1000 genomes]
rs9381377	0.83[EUR][1000 genomes]
rs9395063	0.85[ASN][1000 genomes]
rs9395065	0.87[ASN][1000 genomes]
rs9395066	0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9395069	0.89[EUR][1000 genomes]
rs9395079	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9395081	0.80[ASN][1000 genomes]
rs9395086	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9395088	0.89[ASN][1000 genomes]
rs9463076	0.93[ASN][1000 genomes]
rs9463078	0.85[EUR][1000 genomes]
rs9463081	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9472451	0.90[ASN][1000 genomes]
rs964452	0.94[ASN][1000 genomes]
rs969211	0.82[ASN][1000 genomes]
rs988147	0.95[ASN][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	nsv1028393	chr6:44875558-45822335	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
2	nsv538211	chr6:44875558-45822335	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
3	nsv1024370	chr6:44878053-45251451	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
4	nsv885864	chr6:44890760-45198796	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1023018	chr6:44925393-45152912	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv538212	chr6:44925393-45152912	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
7	nsv492309	chr6:45020402-45233484	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases
8	nsv1032906	chr6:45069368-45212863	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1324531	SUPT3H	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:45132000-45141400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:45132200-45137600	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:45132400-45137800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
4	chr6:45133000-45137800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr6:45133000-45143200	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr6:45135000-45136600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:45136200-45136600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
8	chr6:45136200-45138600	Enhancers	Fetal Heart	heart

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links