Variant report

Variant	rs73502110
Chromosome Location	chr11:62391629-62391630
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:62390647-62391794	PFSK-1	brain:	n/a	n/a
2	POLR2A	chr11:62388431-62392276	HepG2	liver:	n/a	n/a
3	POLR2A	chr11:62390764-62391864	SK-N-MC	brain:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr11:62390108..62392854-chr11:62646793..62648949,2	K562	blood:
2	chr11:62390135..62391871-chr11:62537501..62539145,2	K562	blood:
3	chr11:62389835..62391768-chr11:62393147..62395861,2	MCF-7	breast:
4	chr11:62391590..62393970-chr11:62432294..62434481,2	MCF-7	breast:
5	chr11:62387607..62392064-chr11:62413690..62415602,6	K562	blood:
6	chr11:62389615..62391711-chr11:62410894..62415221,6	MCF-7	breast:
7	chr11:62385249..62394022-chr11:62430274..62439840,30	K562	blood:
8	chr11:62388618..62392022-chr11:62621970..62625527,4	K562	blood:

No data

Variant related genes	Relation type
B3GAT3	TF binding region
ENSG00000267811	Chromatin interaction
ENSG00000168003	Chromatin interaction
ENSG00000089597	Chromatin interaction
ENSG00000204922	Chromatin interaction
ENSG00000162194	Chromatin interaction
ENSG00000162227	Chromatin interaction
ENSG00000206597	Chromatin interaction
ENSG00000255432	Chromatin interaction
ENSG00000255717	Chromatin interaction
ENSG00000214756	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12286444	0.82[AFR][1000 genomes]
rs12292661	1.00[EUR][1000 genomes]
rs1799959	1.00[EUR][1000 genomes]
rs2956992	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2957121	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4343028	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4387351	1.00[EUR][1000 genomes]
rs55979088	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs948683	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915636	chr11:62016992-62713565	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1441 gene(s)	inside rSNPs	diseases
2	nsv532283	chr11:62201358-62863475	Enhancers Flanking Active TSS Genic enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1433 gene(s)	inside rSNPs	diseases
3	nsv532284	chr11:62220043-62630253	Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Enhancers Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1401 gene(s)	inside rSNPs	diseases
4	esv3584599	chr11:62262742-62398050	Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Enhancers Weak transcription Bivalent/Poised TSS Active 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	156 gene(s)	inside rSNPs	diseases
5	nsv832182	chr11:62295575-62462848	Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	245 gene(s)	inside rSNPs	diseases
6	nsv825939	chr11:62326083-62410577	Flanking Active TSS Genic enhancers Strong transcription Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
7	nsv497903	chr11:62330308-62608042	Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	489 gene(s)	inside rSNPs	diseases
8	nsv555174	chr11:62334096-62496519	Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	243 gene(s)	inside rSNPs	diseases
9	nsv897622	chr11:62366986-62392229	Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:62389400-62392600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:62389400-62392800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr11:62389400-62393200	Weak transcription	Small Intestine	intestine
4	chr11:62389600-62392600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr11:62389600-62392600	Weak transcription	Primary T cells from cord blood	blood
6	chr11:62389600-62392600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr11:62389600-62392600	Weak transcription	Gastric	stomach
8	chr11:62389600-62392600	Weak transcription	Psoas Muscle	Psoas
9	chr11:62389600-62393200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr11:62389600-62393200	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr11:62389600-62393600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr11:62389800-62392000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr11:62389800-62392200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr11:62389800-62392400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr11:62389800-62392600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr11:62389800-62392600	Weak transcription	Esophagus	oesophagus
17	chr11:62389800-62392600	Weak transcription	Ovary	ovary
18	chr11:62389800-62392600	Weak transcription	Spleen	Spleen
19	chr11:62390000-62392000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr11:62390000-62392000	Weak transcription	Fetal Brain Female	brain
21	chr11:62390000-62392200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr11:62390000-62392400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr11:62390000-62392400	Weak transcription	Brain Cingulate Gyrus	brain
24	chr11:62390000-62392400	Weak transcription	Brain Germinal Matrix	brain
25	chr11:62390000-62392400	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr11:62390000-62392400	Weak transcription	Right Ventricle	heart
27	chr11:62390000-62392600	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr11:62390000-62392600	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr11:62390000-62392600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr11:62390000-62392600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr11:62390000-62392600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr11:62390000-62392600	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr11:62390000-62392600	Weak transcription	Primary B cells from cord blood	blood
34	chr11:62390000-62392600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr11:62390000-62392600	Weak transcription	Aorta	Aorta
36	chr11:62390000-62392600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr11:62390000-62392600	Weak transcription	Brain Substantia Nigra	brain
38	chr11:62390000-62392600	Weak transcription	Duodenum Mucosa	Duodenum
39	chr11:62390000-62392600	Weak transcription	Fetal Intestine Large	intestine
40	chr11:62390000-62392600	Weak transcription	Fetal Lung	lung
41	chr11:62390000-62392600	Weak transcription	Left Ventricle	heart
42	chr11:62390000-62392600	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr11:62390000-62392600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr11:62390000-62392600	Weak transcription	Dnd41	blood
45	chr11:62390000-62392600	Weak transcription	GM12878-XiMat	blood
46	chr11:62390000-62392800	Weak transcription	Fetal Kidney	kidney
47	chr11:62390000-62395400	Weak transcription	Fetal Brain Male	brain
48	chr11:62390000-62396200	Weak transcription	Fetal Heart	heart
49	chr11:62390000-62406800	Weak transcription	Right Atrium	heart
50	chr11:62390000-62413200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links