Variant report

Variant	rs2063678
Chromosome Location	chr6:4666346-4666347
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CDYL-8	chr6:4666301-4666493	NONHSAT107471

Extended variants
information (count: 26 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11242965	0.84[AFR][1000 genomes]
rs11964064	0.81[EUR][1000 genomes]
rs12198676	0.80[ASN][1000 genomes]
rs12201817	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12201861	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12213814	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1971444	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1971445	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2063677	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2073042	0.97[EUR][1000 genomes]
rs2281275	0.97[EUR][1000 genomes]
rs379650	0.80[ASN][1000 genomes]
rs392108	0.80[ASN][1000 genomes]
rs443430	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs67325872	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6918242	0.97[EUR][1000 genomes]
rs72819438	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs742570	0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7768553	0.80[ASN][1000 genomes]
rs9328267	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9328268	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9378408	0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9392619	0.85[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9405760	0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3366530	chr6:4471528-4865322	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv528627	chr6:4614058-4731340	Flanking Bivalent TSS/Enh Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:4662000-4667200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:4662000-4667800	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:4663600-4666400	Weak transcription	HSMMtube	muscle
4	chr6:4663800-4666600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:4664000-4667000	Enhancers	Osteobl	bone
6	chr6:4664000-4669600	Enhancers	K562	blood
7	chr6:4664400-4666600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr6:4664800-4667800	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:4664800-4668600	Weak transcription	HSMM	muscle
10	chr6:4665000-4668600	Weak transcription	NHDF-Ad	bronchial
11	chr6:4665000-4670400	Weak transcription	Fetal Muscle Leg	muscle
12	chr6:4665000-4680400	Weak transcription	Right Atrium	heart
13	chr6:4665200-4668600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr6:4665200-4670400	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr6:4665600-4666800	Enhancers	NH-A	brain
16	chr6:4665800-4666600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr6:4665800-4666800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr6:4666000-4666600	Enhancers	Hela-S3	cervix
19	chr6:4666000-4670400	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr6:4666200-4666400	Enhancers	Muscle Satellite Cultured Cells	--
21	chr6:4666200-4666600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links