Variant report

Variant	rs61515492
Chromosome Location	chr11:65725728-65725729
allele	C/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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:65699308..65702229-chr11:65725345..65726917,2	MCF-7	breast:
2	chr11:65715344..65718817-chr11:65724014..65725957,3	MCF-7	breast:
3	chr11:65683165..65691632-chr11:65723620..65730701,28	MCF-7	breast:
4	chr11:65723943..65726098-chr11:65726720..65729599,3	MCF-7	breast:
5	chr11:65665429..65670947-chr11:65725068..65731705,14	MCF-7	breast:
6	chr11:65479277..65482595-chr11:65725720..65729556,3	MCF-7	breast:
7	chr11:65712713..65714464-chr11:65724212..65726864,2	MCF-7	breast:
8	chr11:65708763..65711558-chr11:65724262..65726531,2	MCF-7	breast:
9	chr11:65725324..65726831-chr11:65776264..65777958,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000175513	Chromatin interaction
ENSG00000175550	Chromatin interaction
ENSG00000175467	Chromatin interaction
ENSG00000175592	Chromatin interaction
ENSG00000175573	Chromatin interaction
ENSG00000172977	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10791831	0.86[ASN][1000 genomes]
rs10896065	0.83[ASN][1000 genomes]
rs11227338	0.82[ASN][1000 genomes]
rs11542177	0.86[ASN][1000 genomes]
rs11545221	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12099125	0.86[ASN][1000 genomes]
rs12099359	0.86[ASN][1000 genomes]
rs12574568	0.86[ASN][1000 genomes]
rs12575004	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12575514	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12575735	0.93[ASN][1000 genomes]
rs12576095	0.83[ASN][1000 genomes]
rs12576224	0.81[ASN][1000 genomes]
rs12576287	0.87[ASN][1000 genomes]
rs12576319	0.86[ASN][1000 genomes]
rs12577165	0.83[ASN][1000 genomes]
rs12577625	0.94[ASN][1000 genomes]
rs2276015	0.92[ASN][1000 genomes]
rs2276017	0.86[ASN][1000 genomes]
rs2277305	0.86[ASN][1000 genomes]
rs28372938	0.94[ASN][1000 genomes]
rs3825068	0.86[ASN][1000 genomes]
rs565921	1.00[EUR][1000 genomes]
rs57968007	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58192075	0.86[ASN][1000 genomes]
rs58905199	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs59156593	0.87[EUR][1000 genomes]
rs59768626	1.00[EUR][1000 genomes]
rs653955	0.86[ASN][1000 genomes]
rs67232706	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs67530871	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72928826	0.87[EUR][1000 genomes]
rs72928828	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72928830	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72928831	0.94[AFR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72928860	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72928879	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs72928884	0.87[ASN][1000 genomes]
rs72928898	0.87[ASN][1000 genomes]
rs72928900	0.87[ASN][1000 genomes]
rs72930914	0.86[ASN][1000 genomes]
rs72930933	0.86[ASN][1000 genomes]
rs72930942	0.86[ASN][1000 genomes]
rs72930945	0.86[ASN][1000 genomes]
rs72930951	0.86[ASN][1000 genomes]
rs72930952	0.86[ASN][1000 genomes]
rs72930956	0.86[ASN][1000 genomes]
rs72930964	0.86[ASN][1000 genomes]
rs72930967	0.86[ASN][1000 genomes]
rs72930974	0.86[ASN][1000 genomes]
rs73496412	0.86[ASN][1000 genomes]
rs73496423	0.84[ASN][1000 genomes]
rs73496424	0.86[ASN][1000 genomes]
rs73496435	0.86[ASN][1000 genomes]
rs7927841	0.92[ASN][1000 genomes]
rs7940700	0.83[ASN][1000 genomes]
rs7941052	0.81[ASN][1000 genomes]
rs9326362	0.86[ASN][1000 genomes]
rs9919533	0.83[ASN][1000 genomes]
rs9943575	0.90[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	nsv430401	chr11:65419324-65788024	Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	224 gene(s)	inside rSNPs	diseases
2	nsv897761	chr11:65580638-65738566	Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer 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	186 gene(s)	inside rSNPs	diseases
3	nsv897762	chr11:65613218-65758854	Active TSS Flanking Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	185 gene(s)	inside rSNPs	diseases
4	nsv897765	chr11:65623708-65758854	Strong transcription Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	178 gene(s)	inside rSNPs	diseases
5	nsv832191	chr11:65632329-65806120	Flanking Active TSS Weak transcription Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
6	nsv948711	chr11:65692760-65949674	Genic enhancers Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	65 gene(s)	inside rSNPs	diseases
7	nsv897768	chr11:65715210-65842064	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	61 gene(s)	inside rSNPs	diseases
8	nsv983036	chr11:65721564-65725846	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:65709200-65726000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr11:65714000-65728400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr11:65714400-65728400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:65715400-65726000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr11:65715400-65726200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr11:65715400-65728400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr11:65720200-65728200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr11:65721400-65726000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
9	chr11:65722800-65728200	Weak transcription	NHEK	skin
10	chr11:65722800-65728400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr11:65724000-65725800	Enhancers	Primary T cells from cord blood	blood
12	chr11:65724000-65726000	Enhancers	Primary B cells from cord blood	blood
13	chr11:65724000-65726200	Enhancers	Fetal Thymus	thymus
14	chr11:65724600-65725800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr11:65724600-65725800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr11:65724600-65726400	Enhancers	Primary T cells fromperipheralblood	blood
17	chr11:65724600-65728200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr11:65724600-65728200	Weak transcription	Rectal Mucosa Donor 31	rectum
19	chr11:65724600-65728400	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr11:65724800-65726200	Enhancers	Primary B cells from peripheral blood	blood
21	chr11:65724800-65727600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr11:65724800-65727600	Weak transcription	Dnd41	blood
23	chr11:65724800-65728200	Weak transcription	Duodenum Mucosa	Duodenum
24	chr11:65724800-65728200	Weak transcription	Hela-S3	cervix
25	chr11:65725000-65726000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
26	chr11:65725000-65726000	Enhancers	Primary T helper cells PMA-I stimulated	--
27	chr11:65725000-65726400	Enhancers	Fetal Brain Male	brain
28	chr11:65725000-65728400	Weak transcription	Stomach Mucosa	stomach
29	chr11:65725200-65728200	Weak transcription	Primary monocytes fromperipheralblood	blood
30	chr11:65725200-65728200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr11:65725200-65728200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
32	chr11:65725200-65728200	Weak transcription	Thymus	Thymus
33	chr11:65725200-65728200	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr11:65725200-65728400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
35	chr11:65725200-65728400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr11:65725200-65728600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr11:65725200-65728600	Weak transcription	Spleen	Spleen
38	chr11:65725400-65726200	Weak transcription	HepG2	liver
39	chr11:65725400-65728200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr11:65725400-65728400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
41	chr11:65725400-65728400	Weak transcription	GM12878-XiMat	blood
42	chr11:65725400-65728600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr11:65725600-65728200	Weak transcription	Primary T helper cells fromperipheralblood	blood
44	chr11:65725600-65728600	Weak transcription	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links