Variant report

Variant	rs6877740
Chromosome Location	chr5:58756590-58756591
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1813481	1.00[AMR][1000 genomes]
rs1813482	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1813483	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3903515	1.00[AMR][1000 genomes]
rs55874040	1.00[AMR][1000 genomes]
rs55884041	1.00[AMR][1000 genomes]
rs56075849	1.00[AMR][1000 genomes]
rs56085550	1.00[AMR][1000 genomes]
rs56125266	1.00[AMR][1000 genomes]
rs56143170	1.00[AMR][1000 genomes]
rs56386809	1.00[AMR][1000 genomes]
rs58287048	1.00[AMR][1000 genomes]
rs59281772	1.00[AMR][1000 genomes]
rs59524261	1.00[AMR][1000 genomes]
rs59983793	1.00[AMR][1000 genomes]
rs6889851	1.00[MEX][hapmap]
rs6891288	1.00[MKK][hapmap]
rs73758503	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73758504	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73758505	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73758506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73758507	1.00[AMR][1000 genomes]
rs73758509	1.00[AMR][1000 genomes]
rs73758510	1.00[AMR][1000 genomes]
rs73758511	1.00[AMR][1000 genomes]
rs73758512	1.00[AMR][1000 genomes]
rs73758513	1.00[AMR][1000 genomes]
rs73758690	1.00[AMR][1000 genomes]
rs73758692	1.00[AMR][1000 genomes]
rs73758693	1.00[AMR][1000 genomes]
rs73758694	1.00[AMR][1000 genomes]
rs73758695	1.00[AMR][1000 genomes]
rs73758699	1.00[AMR][1000 genomes]
rs73758700	1.00[AMR][1000 genomes]
rs73758701	1.00[AMR][1000 genomes]
rs73758840	1.00[AMR][1000 genomes]
rs73758841	1.00[AMR][1000 genomes]
rs73758842	1.00[AMR][1000 genomes]
rs73760303	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73760305	1.00[AMR][1000 genomes]
rs73760361	1.00[AMR][1000 genomes]
rs73760362	1.00[AMR][1000 genomes]
rs73760365	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73760616	1.00[AMR][1000 genomes]
rs73760618	1.00[AMR][1000 genomes]
rs73760620	1.00[AMR][1000 genomes]
rs73760622	1.00[AMR][1000 genomes]
rs73761528	1.00[AMR][1000 genomes]
rs73761530	1.00[AMR][1000 genomes]
rs7723589	1.00[AMR][1000 genomes]
rs7735649	1.00[AMR][1000 genomes]
rs7735819	1.00[AMR][1000 genomes]
rs931856	1.00[AMR][1000 genomes]
rs931857	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023628	chr5:58557950-58757438	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv917274	chr5:58565291-58814374	Active TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv1028022	chr5:58673780-58786468	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv598254	chr5:58715782-58923601	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv881706	chr5:58730111-58865857	Genic enhancers Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv881707	chr5:58741491-58784102	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:58709800-58756800	Weak transcription	Aorta	Aorta
2	chr5:58716000-58756600	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr5:58731800-58764800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr5:58752200-58756600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr5:58753600-58767400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr5:58753800-58757600	Enhancers	Fetal Intestine Small	intestine
7	chr5:58754600-58759200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:58754600-58760800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr5:58754600-58780200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:58755000-58759200	Genic enhancers	A549	lung
11	chr5:58755400-58756800	Enhancers	Fetal Kidney	kidney
12	chr5:58755600-58756800	Enhancers	Liver	Liver
13	chr5:58755600-58761400	Weak transcription	Fetal Brain Female	brain
14	chr5:58755800-58757000	Enhancers	Pancreatic Islets	Pancreatic Islet
15	chr5:58755800-58762600	Weak transcription	Fetal Intestine Large	intestine
16	chr5:58756200-58756800	Enhancers	Skeletal Muscle Male	skeletal muscle
17	chr5:58756200-58757000	Enhancers	Fetal Brain Male	brain
18	chr5:58756200-58757000	Enhancers	Fetal Stomach	stomach
19	chr5:58756400-58756800	Enhancers	Brain Angular Gyrus	brain
20	chr5:58756400-58756800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
21	chr5:58756400-58756800	Enhancers	Brain Substantia Nigra	brain
22	chr5:58756400-58756800	Enhancers	Fetal Muscle Leg	muscle
23	chr5:58756400-58756800	Enhancers	Gastric	stomach
24	chr5:58756400-58756800	Enhancers	Pancreas	Pancrea
25	chr5:58756400-58756800	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr5:58756400-58757000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
27	chr5:58756400-58757000	Enhancers	Psoas Muscle	Psoas

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