Variant report

Variant	rs1890897
Chromosome Location	chr10:93667635-93667636
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:5)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:5 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SIN3A	chr10:93667593-93669434	H1-hESC	embryonic stem cell:	n/a	n/a
2	RCOR1	chr10:93667538-93669531	IMR90	lung:	n/a	n/a
3	MXI1	chr10:93667628-93667754	GM12878	blood:	n/a	n/a
4	MXI1	chr10:93667572-93669714	SK-N-SH	brain:	n/a	n/a
5	POLR2A	chr10:93667456-93667650	HepG2	liver:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:93667092..93669492-chr10:93682952..93684892,2	MCF-7	breast:
2	chr10:93666065..93670682-chr10:93680624..93684315,6	K562	blood:
3	chr10:93555222..93557965-chr10:93666465..93668632,2	MCF-7	breast:
4	chr10:93666676..93671284-chr10:93682037..93685018,8	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000272817	TF binding region
ENSG00000095564	Chromatin interaction
ENSG00000228701	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10748572	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1711841	1.00[YRI][hapmap]
rs1770477	1.00[AMR][1000 genomes]
rs1772178	1.00[AMR][1000 genomes]
rs2421807	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2676812	1.00[AMR][1000 genomes]
rs2792023	1.00[AMR][1000 genomes]
rs2797642	1.00[AMR][1000 genomes]
rs3905004	1.00[AMR][1000 genomes]
rs4367860	1.00[AMR][1000 genomes]
rs701845	1.00[YRI][hapmap]
rs7894570	1.00[AMR][1000 genomes]
rs833379	1.00[YRI][hapmap]
rs833381	1.00[YRI][hapmap]
rs833382	1.00[YRI][hapmap]
rs855562	1.00[AMR][1000 genomes]
rs855712	1.00[YRI][hapmap]

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

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:93647400-93667800	Weak transcription	Spleen	Spleen
2	chr10:93663600-93667800	Weak transcription	Gastric	stomach
3	chr10:93663800-93667800	Weak transcription	Fetal Intestine Large	intestine
4	chr10:93664200-93667800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:93666200-93669600	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr10:93666400-93668200	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr10:93666400-93669400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr10:93666600-93668800	Active TSS	iPS-18 Cell Line	embryonic stem cell
9	chr10:93666800-93667800	Enhancers	HepG2	liver
10	chr10:93666800-93668000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr10:93666800-93668200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr10:93666800-93669400	Active TSS	H9 Cell Line	embryonic stem cell
13	chr10:93667000-93667800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr10:93667000-93667800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr10:93667000-93667800	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr10:93667000-93667800	Enhancers	Duodenum Mucosa	Duodenum
17	chr10:93667000-93667800	Enhancers	Placenta	Placenta
18	chr10:93667000-93667800	Enhancers	Lung	lung
19	chr10:93667000-93667800	Enhancers	Skeletal Muscle Female	skeletal muscle
20	chr10:93667000-93667800	Enhancers	Small Intestine	intestine
21	chr10:93667000-93668000	Flanking Active TSS	NH-A	brain
22	chr10:93667000-93668200	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr10:93667000-93668200	Flanking Active TSS	Dnd41	blood
24	chr10:93667000-93669000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr10:93667000-93669200	Active TSS	Rectal Smooth Muscle	rectum
26	chr10:93667000-93669400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr10:93667000-93669600	Active TSS	iPS-15b Cell Line	embryonic stem cell
28	chr10:93667000-93669600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
29	chr10:93667200-93667800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
30	chr10:93667200-93667800	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
31	chr10:93667200-93667800	Flanking Active TSS	Fetal Lung	lung
32	chr10:93667200-93668000	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
33	chr10:93667200-93668000	Flanking Active TSS	Fetal Brain Male	brain
34	chr10:93667200-93668000	Enhancers	Fetal Heart	heart
35	chr10:93667200-93668200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr10:93667200-93669200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
37	chr10:93667200-93669400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr10:93667200-93669400	Active TSS	Colon Smooth Muscle	Colon
39	chr10:93667200-93669600	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
40	chr10:93667200-93669600	Active TSS	HUES6 Cell Line	embryonic stem cell
41	chr10:93667200-93669600	Active TSS	iPS-20b Cell Line	embryonic stem cell
42	chr10:93667200-93669600	Active TSS	NHDF-Ad	bronchial
43	chr10:93667200-93669800	Active TSS	HUES48 Cell Line	embryonic stem cell
44	chr10:93667400-93667800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr10:93667400-93667800	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr10:93667400-93667800	Enhancers	Liver	Liver
47	chr10:93667400-93667800	Active TSS	Colonic Mucosa	Colon
48	chr10:93667400-93667800	Enhancers	Skeletal Muscle Male	skeletal muscle
49	chr10:93667400-93667800	Active TSS	Stomach Smooth Muscle	stomach
50	chr10:93667400-93667800	Flanking Active TSS	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links