Variant report

Variant	rs1676890
Chromosome Location	chr11:74989276-74989277
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:74989224-74989388	HUVEC	blood vessel:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:74983321..74986512-chr11:74987879..74990018,3	MCF-7	breast:

Variant related genes	Relation type
ARRB1	TF binding region
ENSG00000137486	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1320709	0.89[CEU][hapmap]
rs1676884	0.89[CEU][hapmap]
rs1676886	0.85[CEU][hapmap]
rs1789681	0.89[CEU][hapmap]
rs1789687	0.89[CEU][hapmap]
rs2279129	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2279130	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2282600	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs35786880	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049887	chr11:74937977-75040438	Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1036292	chr11:74937977-75059496	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	65 gene(s)	inside rSNPs	diseases
3	nsv1041640	chr11:74945824-75174688	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	94 gene(s)	inside rSNPs	diseases
4	nsv832211	chr11:74945839-75106125	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	66 gene(s)	inside rSNPs	diseases
5	nsv522447	chr11:74982939-75068767	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	57 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:74972400-75004400	Weak transcription	Fetal Brain Male	brain
2	chr11:74972800-74991400	Weak transcription	Right Atrium	heart
3	chr11:74975200-74991200	Strong transcription	Fetal Stomach	stomach
4	chr11:74975600-74991400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
5	chr11:74975600-74999000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr11:74975800-74991200	Strong transcription	HUES6 Cell Line	embryonic stem cell
7	chr11:74976200-74991800	Strong transcription	Lung	lung
8	chr11:74976400-74990200	Strong transcription	Fetal Muscle Trunk	muscle
9	chr11:74976600-74994200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr11:74977400-74990400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr11:74978400-74990400	Strong transcription	Stomach Smooth Muscle	stomach
12	chr11:74978600-74995000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr11:74979000-74994400	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr11:74980000-74991200	Strong transcription	Fetal Muscle Leg	muscle
15	chr11:74982000-74989400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr11:74982000-74991000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr11:74982000-74991600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
18	chr11:74982200-74990200	Strong transcription	Sigmoid Colon	Sigmoid Colon
19	chr11:74982200-74990600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr11:74982200-74991400	Strong transcription	Rectal Mucosa Donor 31	rectum
21	chr11:74982200-74991600	Strong transcription	Gastric	stomach
22	chr11:74983600-74990600	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr11:74983600-74996000	Weak transcription	Aorta	Aorta
24	chr11:74983800-74996400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
25	chr11:74984600-74991200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
26	chr11:74985000-74990000	Weak transcription	Fetal Heart	heart
27	chr11:74985000-74991400	Weak transcription	NHLF	lung
28	chr11:74985200-74991400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr11:74985400-74994600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr11:74985400-74995600	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr11:74986400-74990000	Strong transcription	Left Ventricle	heart
32	chr11:74986400-74991000	Strong transcription	Brain Inferior Temporal Lobe	brain
33	chr11:74986600-74990200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr11:74986600-74991200	Strong transcription	Brain Anterior Caudate	brain
35	chr11:74986600-74991600	Strong transcription	HepG2	liver
36	chr11:74986800-74991200	Strong transcription	Brain Hippocampus Middle	brain
37	chr11:74987000-74990200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr11:74987000-74991200	Strong transcription	Brain Cingulate Gyrus	brain
39	chr11:74987200-74989800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr11:74987200-74990200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr11:74987200-74990400	Strong transcription	Placenta	Placenta
42	chr11:74987200-74998800	Strong transcription	Fetal Brain Female	brain
43	chr11:74987200-74999400	Weak transcription	Fetal Kidney	kidney
44	chr11:74987400-74990000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr11:74987400-74990000	Strong transcription	Brain Germinal Matrix	brain
46	chr11:74987400-74990200	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr11:74987400-74990400	Strong transcription	Brain Substantia Nigra	brain
48	chr11:74987400-74990800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
49	chr11:74987400-74991200	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr11:74987600-74989600	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links