Variant report

Variant	rs62139662
Chromosome Location	chr2:47586898-47586899
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KCNK12-3	chr2:47586644-47586916	NONHSAT070573

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs17217828	0.81[EUR][1000 genomes]
rs17224199	0.81[EUR][1000 genomes]
rs62138457	0.95[EUR][1000 genomes]
rs62139661	0.82[EUR][1000 genomes]
rs62139666	0.95[EUR][1000 genomes]
rs62139715	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817517	chr2:46819371-47715140	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	152 gene(s)	inside rSNPs	diseases
2	nsv1004828	chr2:47056849-47814482	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv531348	chr2:47433147-47827310	Flanking Bivalent TSS/Enh Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv999576	chr2:47506116-47773960	Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
5	nsv524003	chr2:47543245-47590034	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	nsv581756	chr2:47552706-47590930	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv1009586	chr2:47552706-47621487	Strong transcription Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:47578200-47589600	Enhancers	Fetal Intestine Small	intestine
2	chr2:47580200-47589600	Enhancers	Fetal Intestine Large	intestine
3	chr2:47580600-47588400	Enhancers	Rectal Mucosa Donor 31	rectum
4	chr2:47582400-47588200	Weak transcription	NHDF-Ad	bronchial
5	chr2:47584200-47587000	Enhancers	Sigmoid Colon	Sigmoid Colon
6	chr2:47584400-47587000	Enhancers	Colonic Mucosa	Colon
7	chr2:47584800-47587600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr2:47584800-47588200	Weak transcription	HMEC	breast
9	chr2:47584800-47588400	Weak transcription	NHEK	skin
10	chr2:47585000-47587600	Weak transcription	A549	lung
11	chr2:47585000-47587600	Weak transcription	Osteobl	bone
12	chr2:47585000-47588000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr2:47585000-47588200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr2:47585000-47588200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr2:47585000-47588400	Weak transcription	NH-A	brain
16	chr2:47585200-47587600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr2:47586400-47587000	Flanking Active TSS	K562	blood
18	chr2:47586400-47587200	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
19	chr2:47586600-47587000	Flanking Active TSS	HepG2	liver
20	chr2:47586600-47587400	Enhancers	Duodenum Mucosa	Duodenum
21	chr2:47586600-47589000	Enhancers	Stomach Mucosa	stomach
22	chr2:47586800-47587000	Enhancers	ES-I3 Cell Line	embryonic stem cell

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