Variant report

Variant	rs1209936
Chromosome Location	chr21:40163956-40163957
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr21:40159408..40162072-chr21:40163674..40168810,7	MCF-7	breast:
2	chr21:40158174..40165115-chr21:40166769..40170231,7	K562	blood:
3	chr21:40158554..40160478-chr21:40163082..40164922,2	K562	blood:
4	chr21:40161170..40164119-chr21:40553969..40556630,2	K562	blood:
5	chr21:40156267..40158669-chr21:40161958..40164607,2	K562	blood:
6	chr21:40161930..40164831-chr21:40176426..40179511,3	K562	blood:

Variant related genes	Relation type
ENSG00000183527	Chromatin interaction
ENSG00000157557	Chromatin interaction
ENSG00000272991	Chromatin interaction

Extended variants
information (count: 44 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1013777	1.00[CEU][hapmap];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1041781	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1041782	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11088448	0.85[ASN][1000 genomes]
rs1209912	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1209913	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1209914	0.88[CEU][hapmap];0.81[ASN][1000 genomes]
rs1209916	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1209917	1.00[CEU][hapmap];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1209918	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1209919	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1209920	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1209921	0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1209922	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1209923	1.00[CEU][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1209924	0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1209925	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1209926	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1209927	1.00[CEU][hapmap];0.83[YRI][hapmap];0.86[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1209928	1.00[CEU][hapmap];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1209929	1.00[CEU][hapmap];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1209931	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1209932	1.00[CEU][hapmap];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1209933	1.00[CEU][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1209934	1.00[CEU][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1209935	1.00[CEU][hapmap];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1209937	0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1209938	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1209939	0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1209940	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1209942	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1209943	1.00[CEU][hapmap];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1209944	0.94[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1209945	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1209946	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1209947	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12626796	0.84[ASN][1000 genomes]
rs13047789	0.85[ASN][1000 genomes]
rs1309152	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2000638	0.83[EUR][1000 genomes]
rs2283638	0.83[ASN][1000 genomes]
rs2283639	0.82[ASN][1000 genomes]
rs714781	0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1058591	chr21:40114130-40190594	Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1209936	ETS2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr21:40160200-40167400	Weak transcription	HUES6 Cell Line	embryonic stem cell
2	chr21:40160600-40165800	Weak transcription	Esophagus	oesophagus
3	chr21:40160600-40169200	Weak transcription	Placenta	Placenta
4	chr21:40160800-40165800	Weak transcription	A549	lung
5	chr21:40160800-40165800	Weak transcription	Hela-S3	cervix
6	chr21:40160800-40167000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr21:40161400-40165800	Weak transcription	Pancreas	Pancrea
8	chr21:40162000-40164600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
9	chr21:40162400-40165600	Weak transcription	HepG2	liver
10	chr21:40162400-40167400	Weak transcription	K562	blood
11	chr21:40162600-40164600	Weak transcription	Stomach Mucosa	stomach
12	chr21:40162800-40165800	Weak transcription	Small Intestine	intestine
13	chr21:40162800-40167200	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr21:40163000-40170400	Weak transcription	Colonic Mucosa	Colon
15	chr21:40163000-40171400	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr21:40163200-40164400	Weak transcription	Duodenum Mucosa	Duodenum
17	chr21:40163200-40165000	Weak transcription	Fetal Intestine Large	intestine
18	chr21:40163400-40167200	Weak transcription	Rectal Mucosa Donor 29	rectum
19	chr21:40163400-40175400	Weak transcription	Primary hematopoietic stem cells	blood
20	chr21:40163600-40167400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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