Variant report

Variant	rs2159700
Chromosome Location	chr7:110016970-110016971
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:110015673..110017196-chr7:110020533..110022537,2	MCF-7	breast:

Extended variants
information (count: 57 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10257901	0.85[ASN][1000 genomes]
rs10487322	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12705678	0.81[ASN][1000 genomes]
rs12705679	0.81[ASN][1000 genomes]
rs12705680	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12705681	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12705682	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12705683	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12705684	0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12705685	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12705686	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12705687	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12705688	0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13239937	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13240708	0.80[ASN][1000 genomes]
rs13243231	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13247393	0.84[ASN][1000 genomes]
rs17432057	0.85[ASN][1000 genomes]
rs17432316	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17432399	0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17432489	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1859027	0.81[ASN][1000 genomes]
rs2159699	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34917604	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35134657	0.84[ASN][1000 genomes]
rs35620972	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35622757	0.81[ASN][1000 genomes]
rs4140831	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4140833	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55814644	0.85[ASN][1000 genomes]
rs56101192	0.85[ASN][1000 genomes]
rs59324488	0.85[ASN][1000 genomes]
rs6466327	0.81[ASN][1000 genomes]
rs6945910	0.81[ASN][1000 genomes]
rs6960164	0.81[ASN][1000 genomes]
rs6963665	0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs71572810	0.81[ASN][1000 genomes]
rs71572812	0.81[ASN][1000 genomes]
rs73716168	0.82[ASN][1000 genomes]
rs73716169	0.82[ASN][1000 genomes]
rs7800766	0.81[ASN][1000 genomes]
rs7801331	0.81[ASN][1000 genomes]
rs7811811	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532177	chr7:109319033-110123840	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1023428	chr7:109451842-110185072	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv1018228	chr7:109612589-110105473	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv539058	chr7:109612589-110105473	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv1030699	chr7:109735284-110017222	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv1016758	chr7:109834827-110549197	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
7	nsv539059	chr7:109834827-110549197	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
8	nsv1028635	chr7:109896582-110417137	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
9	nsv539060	chr7:109896582-110417137	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
10	nsv1024052	chr7:109935167-110126445	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	esv1828513	chr7:109948107-110039995	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv427800	chr7:109949176-110257457	Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
13	nsv1023596	chr7:109984459-110708071	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
14	nsv539061	chr7:109984459-110708071	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2159700	DNAJB9	cis	cerebellum	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:110014400-110023200	Weak transcription	HUES64 Cell Line	embryonic stem cell
2	chr7:110014600-110022800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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