Variant report

Variant	rs7099658
Chromosome Location	chr10:93664644-93664645
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	CEBPB	chr10:93664605-93664727	A549	lung:	n/a	n/a
2	POLR2A	chr10:93664474-93664695	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:93664591..93666451-chr10:93667211..93669714,2	K562	blood:
2	chr10:93662025..93663745-chr10:93663754..93666963,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272817	TF binding region
ENSG00000272817	Chromatin interaction
ENSG00000174721	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10748571	0.82[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10881990	0.91[CHD][hapmap];0.87[JPT][hapmap];0.83[ASN][1000 genomes]
rs10881991	0.96[CHD][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs10881992	0.82[ASN][1000 genomes]
rs10881993	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10881994	0.81[ASN][1000 genomes]
rs11186733	0.83[ASN][1000 genomes]
rs11186734	0.91[CHD][hapmap];0.93[JPT][hapmap];0.83[ASN][1000 genomes]
rs11186735	0.85[ASN][1000 genomes]
rs11186736	0.85[ASN][1000 genomes]
rs11186737	0.87[CHB][hapmap];0.96[CHD][hapmap];0.87[GIH][hapmap];0.82[TSI][hapmap];0.93[ASN][1000 genomes]
rs12220410	0.81[ASN][1000 genomes]
rs1417256	0.93[JPT][hapmap]
rs6583794	0.94[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.92[TSI][hapmap];0.86[YRI][hapmap]
rs7914295	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7919192	0.88[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];0.83[MEX][hapmap];0.95[TSI][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[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
rs7099658	LIPN	cis	cerebellum	SCAN
rs7099658	PDLIM1	cis	cerebellum	SCAN
rs7099658	IFIT2	cis	parietal	SCAN

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93647400-93667800	Weak transcription	Spleen	Spleen
2	chr10:93657600-93665600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:93658200-93666400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr10:93661000-93665600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr10:93661000-93667000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr10:93661000-93667000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr10:93661800-93665600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:93661800-93665800	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr10:93662000-93667000	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr10:93662200-93667000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr10:93662200-93667200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr10:93662200-93667400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:93662200-93667400	Weak transcription	HSMMtube	muscle
14	chr10:93662200-93667600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
15	chr10:93662400-93665600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr10:93662400-93666400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr10:93662400-93666800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr10:93662400-93667000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr10:93662400-93667000	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr10:93662400-93667000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:93662400-93667200	Weak transcription	K562	blood
22	chr10:93662400-93667600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr10:93662600-93664800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr10:93662600-93665600	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr10:93662600-93665800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr10:93662600-93665800	Weak transcription	HepG2	liver
27	chr10:93662600-93666400	Weak transcription	H9 Cell Line	embryonic stem cell
28	chr10:93662600-93666400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr10:93662600-93667000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr10:93662600-93667000	Weak transcription	Primary T cells fromperipheralblood	blood
31	chr10:93662600-93667000	Weak transcription	Primary hematopoietic stem cells	blood
32	chr10:93662600-93667000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr10:93662600-93667000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr10:93662600-93667000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr10:93662600-93667000	Weak transcription	Fetal Thymus	thymus
36	chr10:93662600-93667000	Weak transcription	NH-A	brain
37	chr10:93662600-93667200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr10:93662600-93667200	Weak transcription	NHEK	skin
39	chr10:93662600-93667400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr10:93662800-93665600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
41	chr10:93662800-93665600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr10:93662800-93666200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr10:93662800-93666200	Weak transcription	Fetal Brain Male	brain
44	chr10:93662800-93666200	Weak transcription	Dnd41	blood
45	chr10:93662800-93667000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
46	chr10:93662800-93667000	Weak transcription	Primary monocytes fromperipheralblood	blood
47	chr10:93662800-93667000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr10:93662800-93667000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
49	chr10:93662800-93667000	Weak transcription	Placenta	Placenta
50	chr10:93662800-93667000	Weak transcription	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links