Variant report

Variant	rs7912830
Chromosome Location	chr10:93650603-93650604
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93648930..93651665-chr10:93666944..93669498,2	MCF-7	breast:
2	chr10:93649585..93651720-chr10:93654975..93657870,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000174721	Chromatin interaction
ENSG00000272817	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs10736066	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1417256	0.81[CEU][hapmap]
rs1417257	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1538832	1.00[ASN][1000 genomes]
rs17347260	1.00[ASN][1000 genomes]
rs17433251	1.00[ASN][1000 genomes]
rs1772181	1.00[ASN][1000 genomes]
rs1772186	1.00[ASN][1000 genomes]
rs1772188	1.00[CHB][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2258946	0.81[ASW][hapmap];1.00[CHB][hapmap];0.92[MEX][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2421705	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2421706	1.00[CHB][hapmap];0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61743258	0.81[ASN][1000 genomes]
rs61874701	1.00[ASN][1000 genomes]
rs61874749	0.81[ASN][1000 genomes]
rs61876142	0.81[ASN][1000 genomes]
rs61876148	0.81[ASN][1000 genomes]
rs61876151	0.81[ASN][1000 genomes]
rs6583790	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6583792	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7089495	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7093658	0.92[MEX][hapmap];0.90[ASN][1000 genomes]
rs72823110	0.81[ASN][1000 genomes]
rs72823162	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7917198	0.81[ASN][1000 genomes]
rs7917450	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv7491	chr10:93626192-93671694	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	esv1842657	chr10:93634155-93668663	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7912830	TNKS2-AS1	cis	Thyroid	GTEx
rs7912830	NOC3L	cis	parietal	SCAN
rs7912830	LIPN	cis	cerebellum	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93647400-93667800	Weak transcription	Spleen	Spleen
2	chr10:93647600-93651600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr10:93647800-93651000	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr10:93648000-93651400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr10:93648000-93651400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr10:93648000-93651400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr10:93649200-93650800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr10:93649400-93650800	Enhancers	H9 Cell Line	embryonic stem cell
9	chr10:93649600-93650800	Enhancers	H1 Cell Line	embryonic stem cell
10	chr10:93649800-93651000	Weak transcription	HUES6 Cell Line	embryonic stem cell
11	chr10:93649800-93652200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
12	chr10:93649800-93656200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr10:93650000-93651600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr10:93650200-93652200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr10:93650200-93653400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr10:93650400-93651000	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr10:93650400-93652000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr10:93650400-93652000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr10:93650400-93652000	Enhancers	Hela-S3	cervix
20	chr10:93650400-93652000	Enhancers	HepG2	liver
21	chr10:93650400-93652000	Enhancers	NHDF-Ad	bronchial
22	chr10:93650400-93652200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr10:93650600-93650800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr10:93650600-93650800	Enhancers	NHLF	lung
25	chr10:93650600-93651800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr10:93650600-93651800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr10:93650600-93651800	Enhancers	HUVEC	blood vessel
28	chr10:93650600-93652000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr10:93650600-93652000	Enhancers	Muscle Satellite Cultured Cells	--
30	chr10:93650600-93652000	Enhancers	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links