Variant report

Variant	rs4754233
Chromosome Location	chr11:107463159-107463160
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AP001024.2-2	chr11:107463047-107463227	NR_028328

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs12419100	0.88[ASN][1000 genomes]
rs17107068	0.83[EUR][1000 genomes]
rs17107149	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17107151	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17107158	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17107171	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17107173	0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17107185	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs41416346	0.83[EUR][1000 genomes]
rs4753808	0.98[ASN][1000 genomes]
rs4754227	0.83[EUR][1000 genomes]
rs4754228	0.83[EUR][1000 genomes]
rs4754229	0.83[EUR][1000 genomes]
rs4754231	0.83[EUR][1000 genomes]
rs4754232	0.83[EUR][1000 genomes]
rs481084	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs510699	0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs538138	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56770371	0.83[EUR][1000 genomes]
rs56865667	0.83[EUR][1000 genomes]
rs56875550	0.96[ASN][1000 genomes]
rs57430153	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57842576	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58407219	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60891405	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7112409	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73555568	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs883543	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs956717	0.94[EUR][1000 genomes];0.88[ASN][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	nsv1038368	chr11:107116577-107664181	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv541163	chr11:107116577-107664181	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv556376	chr11:107250851-107486598	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv533794	chr11:107349817-108093259	Bivalent Enhancer Weak transcription ZNF genes & repeats Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:107460400-107465200	Active TSS	Brain Anterior Caudate	brain
2	chr11:107460600-107465000	Active TSS	Brain Angular Gyrus	brain
3	chr11:107461200-107463200	Flanking Active TSS	Right Ventricle	heart
4	chr11:107461200-107463400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr11:107461200-107464600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
6	chr11:107461400-107463200	Bivalent/Poised TSS	Rectal Mucosa Donor 29	rectum
7	chr11:107461400-107463200	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
8	chr11:107461800-107463200	Active TSS	HSMMtube	muscle
9	chr11:107461800-107463600	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
10	chr11:107462000-107463200	Flanking Bivalent TSS/Enh	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr11:107462000-107463200	Flanking Bivalent TSS/Enh	Duodenum Mucosa	Duodenum
12	chr11:107462000-107463600	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
13	chr11:107462200-107463200	Flanking Bivalent TSS/Enh	Primary T helper cells PMA-I stimulated	--
14	chr11:107462200-107463200	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
15	chr11:107462200-107463200	Flanking Bivalent TSS/Enh	NHEK	skin
16	chr11:107462200-107463600	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
17	chr11:107462400-107463400	Active TSS	Aorta	Aorta
18	chr11:107462600-107463200	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
19	chr11:107462600-107463200	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
20	chr11:107462600-107463200	Flanking Bivalent TSS/Enh	Muscle Satellite Cultured Cells	--
21	chr11:107462600-107463200	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
22	chr11:107462600-107463200	Enhancers	Pancreas	Pancrea
23	chr11:107462600-107463200	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
24	chr11:107462600-107463200	Flanking Bivalent TSS/Enh	HUVEC	blood vessel
25	chr11:107462600-107463400	Flanking Bivalent TSS/Enh	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr11:107462600-107463400	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
27	chr11:107462600-107463400	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
28	chr11:107462600-107463400	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
29	chr11:107462600-107464000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr11:107462800-107463200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr11:107462800-107463200	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
32	chr11:107462800-107463200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
33	chr11:107462800-107463200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
34	chr11:107462800-107463200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
35	chr11:107462800-107463200	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr11:107462800-107463200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr11:107462800-107463200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
38	chr11:107462800-107463200	Flanking Bivalent TSS/Enh	Brain Cingulate Gyrus	brain
39	chr11:107462800-107463200	Flanking Bivalent TSS/Enh	Colon Smooth Muscle	Colon
40	chr11:107462800-107463200	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
41	chr11:107462800-107463200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
42	chr11:107462800-107463200	Flanking Bivalent TSS/Enh	Fetal Brain Male	brain
43	chr11:107462800-107463200	Bivalent Enhancer	Left Ventricle	heart
44	chr11:107462800-107463200	Enhancers	Lung	lung
45	chr11:107462800-107463200	Bivalent Enhancer	HMEC	breast
46	chr11:107462800-107463200	Bivalent/Poised TSS	NHLF	lung
47	chr11:107462800-107463400	Bivalent Enhancer	Primary B cells from peripheral blood	blood
48	chr11:107462800-107463600	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
49	chr11:107462800-107463600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
50	chr11:107462800-107463600	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links