Variant report

Variant	rs71551040
Chromosome Location	chr6:15223941-15223942
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

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

No.	Distal block	Cell Line	Cell type
1	chr6:15222786..15224580-chr6:15227485..15229807,2	MCF-7	breast:
2	chr6:15088434..15092772-chr6:15219565..15225354,13	MCF-7	breast:
3	chr6:15218874..15225564-chr6:15243422..15249789,18	MCF-7	breast:
4	chr6:14742305..14744752-chr6:15222484..15225143,3	MCF-7	breast:
5	chr6:15223166..15225334-chr6:15260303..15262711,2	K562	blood:
6	chr6:15221787..15224123-chr6:15242600..15245881,4	MCF-7	breast:
7	chr6:15223678..15226269-chr6:15228000..15229602,2	K562	blood:
8	chr6:15222881..15225842-chr6:15243690..15246286,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000271888	Chromatin interaction
ENSG00000235488	Chromatin interaction
ENSG00000008083	Chromatin interaction
ENSG00000234261	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs13191127	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13197919	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs13198600	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13203059	1.00[AFR][1000 genomes]
rs13203659	1.00[AFR][1000 genomes]
rs13203744	1.00[AFR][1000 genomes]
rs13206138	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13206695	0.85[EUR][1000 genomes]
rs13209122	0.92[EUR][1000 genomes]
rs13209721	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13210652	0.84[EUR][1000 genomes]
rs13213534	0.85[EUR][1000 genomes]
rs13215638	0.85[EUR][1000 genomes]
rs13216551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13216625	0.85[EUR][1000 genomes]
rs13219748	0.92[EUR][1000 genomes]
rs34048058	0.84[EUR][1000 genomes]
rs34144528	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34156913	1.00[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs34229995	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34340185	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs34390534	0.92[EUR][1000 genomes]
rs34470245	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34488826	1.00[EUR][1000 genomes]
rs34677259	0.92[EUR][1000 genomes]
rs34790337	0.84[EUR][1000 genomes]
rs34816087	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34816488	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34934295	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35070076	1.00[AFR][1000 genomes]
rs35147300	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35378362	0.92[EUR][1000 genomes]
rs35659244	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs35660009	0.85[EUR][1000 genomes]
rs35981238	0.92[EUR][1000 genomes]
rs67845400	0.85[EUR][1000 genomes]
rs71533639	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71533640	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71533642	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71551024	1.00[AFR][1000 genomes]
rs71551025	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs71551028	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71551030	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71551032	0.92[EUR][1000 genomes]
rs71551033	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71551034	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs71551035	0.89[EUR][1000 genomes]
rs71551041	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71551042	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs71551043	0.96[EUR][1000 genomes]
rs71551045	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs71551046	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs7740407	0.92[EUR][1000 genomes]
rs9383028	0.85[EUR][1000 genomes]
rs9476760	0.85[EUR][1000 genomes]
rs9476761	0.85[EUR][1000 genomes]
rs9476782	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9476783	0.92[EUR][1000 genomes]
rs9476784	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9476790	1.00[AMR][1000 genomes]
rs9476793	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9476794	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9476797	0.92[EUR][1000 genomes]
rs9476798	0.92[EUR][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	nsv830593	chr6:15049636-15244190	Enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv830594	chr6:15171158-15261296	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15212000-15227600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:15219200-15224000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr6:15219400-15224000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr6:15219400-15224200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr6:15222400-15227600	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr6:15222600-15224200	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr6:15222600-15239400	Weak transcription	Right Atrium	heart
8	chr6:15222800-15224000	Enhancers	Placenta	Placenta
9	chr6:15223000-15224200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
10	chr6:15223200-15224000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
11	chr6:15223200-15224000	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr6:15223200-15224200	Enhancers	Primary B cells from cord blood	blood
13	chr6:15223400-15224000	Enhancers	Primary hematopoietic stem cells	blood
14	chr6:15223600-15224400	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr6:15223800-15224400	Enhancers	H1 Cell Line	embryonic stem cell
16	chr6:15223800-15224400	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links