Variant report

Variant	rs7534707
Chromosome Location	chr1:77926295-77926296
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10782651	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10873942	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11162348	0.99[ASN][1000 genomes]
rs11162350	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12066994	0.96[ASN][1000 genomes]
rs12732787	0.98[ASN][1000 genomes]
rs1498405	1.00[ASN][1000 genomes]
rs1874817	1.00[ASN][1000 genomes]
rs2221084	0.99[ASN][1000 genomes]
rs2247742	1.00[ASN][1000 genomes]
rs2251456	1.00[ASN][1000 genomes]
rs2647503	0.83[ASN][1000 genomes]
rs2647504	0.83[ASN][1000 genomes]
rs2803162	1.00[ASN][1000 genomes]
rs2803165	0.99[ASN][1000 genomes]
rs3121778	0.95[ASN][1000 genomes]
rs6603950	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6687876	1.00[ASN][1000 genomes]
rs7542588	0.83[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
rs7534707	NEXN	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:77907800-77927000	Weak transcription	HSMMtube	muscle
2	chr1:77911200-77934000	Weak transcription	HSMM	muscle
3	chr1:77913000-77934400	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr1:77913200-77930000	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr1:77913200-77937000	Weak transcription	Primary T cells from cord blood	blood
6	chr1:77913200-77968400	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr1:77913400-77929400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr1:77914600-77955600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr1:77915200-77933600	Weak transcription	NHLF	lung
10	chr1:77921800-77930200	Weak transcription	Brain Substantia Nigra	brain
11	chr1:77924400-77926400	Enhancers	Monocytes-CD14+_RO01746	blood
12	chr1:77924600-77926400	Enhancers	Fetal Intestine Large	intestine
13	chr1:77924600-77926600	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr1:77925200-77926600	Enhancers	HUVEC	blood vessel
15	chr1:77925800-77927200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr1:77925800-77932800	Weak transcription	NHDF-Ad	bronchial
17	chr1:77925800-77933400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr1:77926000-77931600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr1:77926000-77933600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links