Variant report

Variant	rs6603950
Chromosome Location	chr1:77938087-77938088
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:77931036..77935396-chr1:77935652..77939462,4	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10782651	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10873942	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10873947	0.86[CHB][hapmap]
rs11162348	0.81[ASN][1000 genomes]
rs11162350	0.85[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11162355	0.86[CHB][hapmap]
rs12066994	0.86[ASN][1000 genomes]
rs12093263	0.86[CHB][hapmap]
rs12732787	0.81[ASN][1000 genomes]
rs1498405	0.83[ASN][1000 genomes]
rs1532508	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1874817	0.82[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2221084	0.81[ASN][1000 genomes]
rs2247742	0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs2251456	0.94[JPT][hapmap];0.83[ASN][1000 genomes]
rs2647503	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2647504	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2803152	0.86[CHB][hapmap]
rs2803155	0.85[CHB][hapmap]
rs2803162	0.83[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2803165	0.83[ASN][1000 genomes]
rs3113637	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs6687876	0.83[ASN][1000 genomes]
rs7514041	0.86[CHB][hapmap]
rs7514937	0.86[CHB][hapmap]
rs7522356	0.82[CEU][hapmap]
rs7534707	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7542588	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005183	chr1:77728990-77949309	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv535010	chr1:77728990-77949309	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv932557	chr1:77730247-77958687	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1003714	chr1:77756861-77949309	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv470719	chr1:77774413-78269207	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv546591	chr1:77774413-78269207	Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	nsv462095	chr1:77903611-77951460	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv546592	chr1:77903611-77951460	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6603950	NEXN	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:77913200-77968400	Weak transcription	Primary T helper cells fromperipheralblood	blood
2	chr1:77914600-77955600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr1:77933600-77944400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:77934200-77939000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr1:77934200-77948800	Weak transcription	Right Atrium	heart
6	chr1:77934600-77939000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr1:77934600-77955200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr1:77934800-77938800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:77934800-77939000	Weak transcription	Osteobl	bone
10	chr1:77934800-77939400	Weak transcription	HSMMtube	muscle
11	chr1:77935000-77939400	Weak transcription	Brain Anterior Caudate	brain
12	chr1:77935200-77939000	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr1:77935400-77938400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr1:77935400-77939000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr1:77935400-77939000	Weak transcription	NHLF	lung
16	chr1:77935600-77939600	Weak transcription	Brain Angular Gyrus	brain
17	chr1:77935600-77939600	Weak transcription	Hela-S3	cervix
18	chr1:77935600-77940000	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr1:77935600-77955800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
20	chr1:77935800-77938800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr1:77935800-77940600	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr1:77935800-77941400	Weak transcription	Monocytes-CD14+_RO01746	blood
23	chr1:77935800-77954800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr1:77937000-77940600	Strong transcription	Primary T cells from cord blood	blood
25	chr1:77937400-77938200	Enhancers	Brain Substantia Nigra	brain
26	chr1:77937600-77938600	Weak transcription	NHDF-Ad	bronchial
27	chr1:77938000-77939000	Weak transcription	HSMM	muscle
28	chr1:77938000-77939200	Strong transcription	Primary T helper naive cells fromperipheralblood	blood

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