Variant report

Variant	rs288344
Chromosome Location	chr2:183666918-183666919
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:183666474..183669367-chr2:183675559..183677309,2	K562	blood:
2	chr2:183664890..183667245-chr2:183673485..183675403,2	K562	blood:
3	chr2:183666072..183668811-chr2:183672766..183675135,2	MCF-7	breast:

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10931040	0.84[EUR][1000 genomes]
rs13509	1.00[ASW][hapmap];0.87[CEU][hapmap];0.88[GIH][hapmap];0.81[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs1452312	0.88[AFR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17356762	0.87[CEU][hapmap]
rs190830	0.82[CEU][hapmap]
rs192618	0.93[ASW][hapmap];0.82[CEU][hapmap];0.80[GIH][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs208393	0.87[CEU][hapmap]
rs288240	0.87[CEU][hapmap]
rs288241	0.86[CEU][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs288253	0.87[CEU][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs288256	0.86[AFR][1000 genomes]
rs288257	0.84[AFR][1000 genomes]
rs288258	0.87[CEU][hapmap]
rs288259	0.87[CEU][hapmap];0.80[GIH][hapmap]
rs288264	1.00[ASW][hapmap];1.00[YRI][hapmap]
rs288265	0.83[CEU][hapmap];1.00[YRI][hapmap]
rs288280	0.87[CEU][hapmap]
rs288283	0.87[CEU][hapmap]
rs288285	0.88[AFR][1000 genomes]
rs288287	0.80[AFR][1000 genomes]
rs288291	0.86[AFR][1000 genomes]
rs288292	0.86[AFR][1000 genomes]
rs288293	0.85[AFR][1000 genomes]
rs288295	0.82[CEU][hapmap]
rs288300	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs288304	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs288306	1.00[ASW][hapmap];0.87[CEU][hapmap];0.90[GIH][hapmap];0.85[LWK][hapmap];0.81[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs288307	0.87[CEU][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs288310	0.87[CEU][hapmap]
rs288311	0.87[CEU][hapmap]
rs288312	0.81[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs288313	0.83[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs288331	0.87[AFR][1000 genomes]
rs288342	0.93[AFR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs288343	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs288346	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs288347	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs288354	0.91[ASN][1000 genomes]
rs3115425	0.85[AFR][1000 genomes]
rs369573	0.84[AFR][1000 genomes]
rs418159	0.84[AFR][1000 genomes]
rs432527	0.84[AFR][1000 genomes]
rs438248	1.00[ASW][hapmap];0.87[CEU][hapmap];0.87[GIH][hapmap];0.81[TSI][hapmap];0.88[YRI][hapmap]
rs442044	0.84[AFR][1000 genomes]
rs4584994	0.84[EUR][1000 genomes]
rs6729801	0.82[CEU][hapmap]
rs825660	0.87[CEU][hapmap]
rs825668	0.87[CEU][hapmap];0.88[GIH][hapmap];0.81[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009882	chr2:183213152-184171519	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	esv2757842	chr2:183437700-183835084	Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv2759104	chr2:183437700-183835084	Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
4	esv2756954	chr2:183528670-183764930	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
5	esv34847	chr2:183537399-183786763	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
6	esv3693445	chr2:183542825-183725221	Weak transcription Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
7	nsv1004531	chr2:183648083-183698793	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv536070	chr2:183648083-183698793	Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv1006265	chr2:183666013-183777604	Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
10	nsv536071	chr2:183666013-183777604	Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs288344	DNAJC10	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:183665800-183667200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr2:183666200-183667800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr2:183666200-183668000	Enhancers	HepG2	liver
4	chr2:183666600-183667800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr2:183666600-183668000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links