Variant report

Variant	rs55762640
Chromosome Location	chr11:46644620-46644621
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1037873	1.00[AMR][1000 genomes]
rs3136430	0.87[AFR][1000 genomes]
rs56692163	1.00[AMR][1000 genomes]
rs56851661	1.00[AMR][1000 genomes]
rs58031860	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7110413	1.00[AMR][1000 genomes]
rs7117944	1.00[AMR][1000 genomes]
rs7121799	1.00[AMR][1000 genomes]
rs7342145	0.83[AFR][1000 genomes]
rs7938644	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7942150	1.00[AMR][1000 genomes]
rs7946071	1.00[AMR][1000 genomes]
rs7946801	0.89[AFR][1000 genomes];1.00[AMR][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	nsv1044225	chr11:46472580-46771102	Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv541030	chr11:46472580-46771102	Weak transcription Strong transcription Genic enhancers Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
3	nsv1046990	chr11:46501436-46669636	Active TSS Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv541031	chr11:46501436-46669636	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
5	nsv897321	chr11:46515902-46673344	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46639800-46645600	Weak transcription	Aorta	Aorta
2	chr11:46640000-46651400	Weak transcription	Gastric	stomach
3	chr11:46640000-46664200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:46640000-46670800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr11:46640200-46651800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr11:46640600-46645800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr11:46640600-46646200	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr11:46640600-46651200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr11:46640600-46651800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr11:46640600-46651800	Weak transcription	Fetal Brain Male	brain
11	chr11:46640600-46667200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr11:46640600-46667200	Weak transcription	Psoas Muscle	Psoas
13	chr11:46640800-46645600	Weak transcription	Spleen	Spleen
14	chr11:46640800-46645600	Weak transcription	HSMMtube	muscle
15	chr11:46640800-46645800	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr11:46640800-46645800	Weak transcription	Colon Smooth Muscle	Colon
17	chr11:46640800-46645800	Weak transcription	Fetal Lung	lung
18	chr11:46640800-46645800	Weak transcription	HSMM	muscle
19	chr11:46640800-46646000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr11:46640800-46646000	Weak transcription	A549	lung
21	chr11:46640800-46646200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr11:46640800-46646400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr11:46640800-46646400	Weak transcription	Rectal Smooth Muscle	rectum
24	chr11:46640800-46646600	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr11:46640800-46646800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr11:46640800-46647000	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr11:46640800-46649400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr11:46640800-46651400	Weak transcription	NHDF-Ad	bronchial
29	chr11:46640800-46651800	Weak transcription	Fetal Kidney	kidney
30	chr11:46640800-46652200	Weak transcription	Small Intestine	intestine
31	chr11:46640800-46652600	Weak transcription	NH-A	brain
32	chr11:46640800-46653400	Weak transcription	HUVEC	blood vessel
33	chr11:46640800-46664400	Weak transcription	GM12878-XiMat	blood
34	chr11:46640800-46670600	Weak transcription	Fetal Heart	heart
35	chr11:46640800-46670800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
36	chr11:46640800-46673000	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr11:46641000-46646800	Weak transcription	Brain Angular Gyrus	brain
38	chr11:46641000-46647200	Weak transcription	Hela-S3	cervix
39	chr11:46641000-46654400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr11:46641000-46657000	Strong transcription	Fetal Stomach	stomach
41	chr11:46641200-46645800	Weak transcription	Primary B cells from cord blood	blood
42	chr11:46641200-46647200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr11:46641200-46648800	Strong transcription	Fetal Thymus	thymus
44	chr11:46641200-46651800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
45	chr11:46641200-46651800	Weak transcription	Ovary	ovary
46	chr11:46641200-46653800	Weak transcription	HMEC	breast
47	chr11:46641400-46647600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr11:46641400-46648200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr11:46641400-46653400	Strong transcription	Fetal Intestine Small	intestine
50	chr11:46641400-46667400	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links