Variant report

Variant	rs13220921
Chromosome Location	chr6:38412833-38412834
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:38411269..38413093-chr6:38413488..38416191,2	K562	blood:
2	chr6:38410346..38413041-chr6:38421338..38423278,2	MCF-7	breast:
3	chr6:38409873..38411784-chr6:38412186..38413893,2	MCF-7	breast:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs12662621	0.92[EUR][1000 genomes]
rs13194990	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13195992	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13199002	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13199426	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13200492	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13206272	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13207910	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13215683	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13217060	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13218556	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34538881	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6900510	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs71544422	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7770885	0.88[AFR][1000 genomes]
rs7772755	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9462433	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9462434	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9462435	0.83[EUR][1000 genomes]
rs9470876	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9470878	0.99[EUR][1000 genomes]
rs9470879	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9470884	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9470887	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh 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
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv885818	chr6:38147745-38436317	Enhancers Weak transcription Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv885820	chr6:38166511-38468887	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1032358	chr6:38323745-38415855	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1022724	chr6:38332368-38454527	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv602958	chr6:38362024-38446634	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv1030889	chr6:38374812-38450432	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38396400-38449800	Weak transcription	Primary B cells from cord blood	blood
2	chr6:38398800-38413800	Weak transcription	Aorta	Aorta
3	chr6:38404800-38413800	Weak transcription	Small Intestine	intestine
4	chr6:38405200-38413800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr6:38405200-38420800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr6:38405400-38413000	Weak transcription	Fetal Heart	heart
7	chr6:38408200-38419200	Weak transcription	Primary T helper cells fromperipheralblood	blood
8	chr6:38409200-38413800	Weak transcription	Ovary	ovary
9	chr6:38412000-38413000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr6:38412000-38413200	Weak transcription	Brain Substantia Nigra	brain
11	chr6:38412000-38413800	Weak transcription	Right Atrium	heart
12	chr6:38412000-38414000	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr6:38412000-38415800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr6:38412000-38415800	Weak transcription	Psoas Muscle	Psoas
15	chr6:38412200-38413000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr6:38412200-38413800	Weak transcription	Brain Anterior Caudate	brain
17	chr6:38412200-38414000	Weak transcription	Spleen	Spleen
18	chr6:38412200-38445600	Weak transcription	Primary T cells from cord blood	blood
19	chr6:38412600-38419000	Weak transcription	Primary hematopoietic stem cells	blood
20	chr6:38412800-38413800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr6:38412800-38413800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:38412800-38414000	Enhancers	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links