Variant report

Variant	rs611085
Chromosome Location	chr11:107463511-107463512
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-AP001024.2-2	chr11:107463416-107463709	NONHSAT023997
2	lnc-AP001024.2-2	chr11:107463416-107463949	NR_028328

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11212301	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12271970	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12281067	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12284345	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12293198	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12577893	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1616927	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1784270	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1939900	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs483468	1.00[ASN][1000 genomes]
rs549541	1.00[ASN][1000 genomes]
rs597383	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs609471	0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs652243	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs668308	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs670446	1.00[ASN][1000 genomes]
rs693605	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73555593	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73557714	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73557719	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73557724	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7933941	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7935762	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7949340	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[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:42 , 50 per page) page: 1

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	chr11:107461200-107464600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
4	chr11:107461800-107463600	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
5	chr11:107462000-107463600	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
6	chr11:107462200-107463600	Bivalent/Poised TSS	ES-WA7 Cell Line	embryonic stem cell
7	chr11:107462600-107464000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr11:107462800-107463600	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr11:107462800-107463600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
10	chr11:107462800-107463600	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
11	chr11:107462800-107463800	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
12	chr11:107462800-107463800	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
13	chr11:107462800-107463800	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
14	chr11:107462800-107463800	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr11:107463000-107463600	Flanking Bivalent TSS/Enh	ES-I3 Cell Line	embryonic stem cell
16	chr11:107463000-107463600	Bivalent Enhancer	Primary T cells from cord blood	blood
17	chr11:107463000-107463600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr11:107463000-107463800	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
19	chr11:107463000-107463800	Bivalent/Poised TSS	Brain Inferior Temporal Lobe	brain
20	chr11:107463000-107463800	Bivalent Enhancer	Fetal Lung	lung
21	chr11:107463000-107464000	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
22	chr11:107463000-107465200	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr11:107463200-107463600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
24	chr11:107463200-107463600	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr11:107463200-107463800	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
26	chr11:107463200-107463800	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
27	chr11:107463200-107463800	Bivalent/Poised TSS	Brain Cingulate Gyrus	brain
28	chr11:107463200-107463800	Bivalent Enhancer	Fetal Muscle Leg	muscle
29	chr11:107463200-107464000	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
30	chr11:107463200-107464200	Bivalent/Poised TSS	Fetal Brain Male	brain
31	chr11:107463200-107482600	Weak transcription	HSMMtube	muscle
32	chr11:107463400-107463600	Bivalent Enhancer	H9 Cell Line	embryonic stem cell
33	chr11:107463400-107463600	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
34	chr11:107463400-107463600	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
35	chr11:107463400-107463600	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
36	chr11:107463400-107463600	Flanking Bivalent TSS/Enh	Primary T helper naive cells from peripheral blood	blood
37	chr11:107463400-107463600	Bivalent/Poised TSS	Brain Substantia Nigra	brain
38	chr11:107463400-107463800	Flanking Bivalent TSS/Enh	Fetal Brain Female	brain
39	chr11:107463400-107463800	Enhancers	HSMM	muscle
40	chr11:107463400-107463800	Bivalent/Poised TSS	NHDF-Ad	bronchial
41	chr11:107463400-107464000	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
42	chr11:107463400-107465000	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links