Variant report

Variant	rs7790984
Chromosome Location	chr7:39604886-39604887
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	chr7:39604710..39608797-chr7:39663149..39665225,4	K562	blood:
2	chr7:39603623..39606050-chr7:39662280..39665105,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000006451	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10232859	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10262131	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10486799	0.87[ASN][1000 genomes]
rs1051162	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11981810	0.97[ASN][1000 genomes]
rs17171592	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17171599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17171601	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17713701	0.94[ASN][1000 genomes]
rs17714026	0.90[ASN][1000 genomes]
rs17714061	0.90[ASN][1000 genomes]
rs17770744	0.90[ASN][1000 genomes]
rs2288744	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2876861	0.90[ASN][1000 genomes]
rs2971	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35586222	0.99[ASN][1000 genomes]
rs59818431	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60942815	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6947660	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6973403	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6978059	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73375667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73375677	0.97[AFR][1000 genomes]
rs73375682	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73375684	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73375686	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021180	chr7:39424988-39642261	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv1026951	chr7:39429036-39642261	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1018430	chr7:39455497-39643569	Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription 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	10 gene(s)	inside rSNPs	diseases
4	nsv887970	chr7:39587912-39688152	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:39597200-39605200	Weak transcription	Fetal Brain Male	brain
2	chr7:39598200-39605000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr7:39601000-39605000	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr7:39601000-39605000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
5	chr7:39601000-39605000	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr7:39601000-39605000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr7:39601000-39605000	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr7:39601000-39605200	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr7:39601200-39605000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr7:39601200-39605000	Weak transcription	K562	blood
11	chr7:39601400-39605000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr7:39601400-39605200	Weak transcription	Fetal Intestine Large	intestine
13	chr7:39601600-39605200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr7:39604200-39605600	Weak transcription	Small Intestine	intestine
15	chr7:39604400-39605200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr7:39604400-39605200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr7:39604600-39605000	Enhancers	Dnd41	blood
18	chr7:39604600-39606600	Active TSS	ES-WA7 Cell Line	embryonic stem cell
19	chr7:39604800-39605000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr7:39604800-39605000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr7:39604800-39605000	Enhancers	Primary hematopoietic stem cells	blood
22	chr7:39604800-39605000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr7:39604800-39605000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr7:39604800-39605000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr7:39604800-39605000	Enhancers	Fetal Brain Female	brain
26	chr7:39604800-39605000	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links