Variant report

Variant	rs189539435
Chromosome Location	chr1:10269529-10269530
allele	A/G/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	RFX5	chr1:10269515-10269577	K562	blood:	n/a	n/a
2	REST	chr1:10269433-10272638	H1-neurons	neurons:	n/a	chr1:10271064-10271074 chr1:10270783-10270793 chr1:10270431-10270441 chr1:10270583-10270596 chr1:10270241-10270254
3	STAT3	chr1:10269379-10269618	MCF10A-Er-Src	breast:	n/a	n/a
4	RCOR1	chr1:10269118-10270983	IMR90	lung:	n/a	n/a
5	CUX1	chr1:10269484-10269539	K562	blood:	n/a	n/a
6	MXI1	chr1:10269317-10272797	SK-N-SH	brain:	n/a	n/a
7	MXI1	chr1:10269369-10272656	IMR90	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:10269235..10270735-chr17:41462941..41466799,3	K562	blood:
2	chr1:10269508..10272201-chr1:10459062..10462119,3	K562	blood:

Variant related genes	Relation type
KIF1B	TF binding region
ENSG00000188825	Chromatin interaction
ENSG00000142657	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757722	chr1:10238070-10582554	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	esv2758920	chr1:10238070-10582554	Strong transcription Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	esv3440429	chr1:10269390-10271938	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:10250000-10269800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr1:10265400-10269600	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr1:10268600-10269600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr1:10268600-10270400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
5	chr1:10268800-10269800	Enhancers	Primary B cells from peripheral blood	blood
6	chr1:10269000-10269600	Enhancers	Colon Smooth Muscle	Colon
7	chr1:10269000-10269800	Enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr1:10269000-10269800	Enhancers	Fetal Muscle Trunk	muscle
9	chr1:10269200-10269600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr1:10269200-10269600	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr1:10269200-10269600	Enhancers	Primary neutrophils fromperipheralblood	blood
12	chr1:10269200-10269600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr1:10269200-10269600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr1:10269200-10269600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
15	chr1:10269200-10269600	Enhancers	Stomach Smooth Muscle	stomach
16	chr1:10269200-10269800	Active TSS	Primary hematopoietic stem cells	blood
17	chr1:10269400-10269600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr1:10269400-10269600	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr1:10269400-10269600	Bivalent Enhancer	iPS-18 Cell Line	embryonic stem cell
20	chr1:10269400-10269600	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr1:10269400-10269600	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr1:10269400-10269600	Bivalent Enhancer	Primary B cells from cord blood	blood
23	chr1:10269400-10269600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr1:10269400-10269600	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr1:10269400-10269600	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr1:10269400-10269600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr1:10269400-10269600	Enhancers	Adipose Nuclei	Adipose
28	chr1:10269400-10269600	Enhancers	Brain Anterior Caudate	brain
29	chr1:10269400-10269600	Enhancers	Brain Cingulate Gyrus	brain
30	chr1:10269400-10269600	Enhancers	Brain Germinal Matrix	brain
31	chr1:10269400-10269600	Enhancers	Fetal Brain Male	brain
32	chr1:10269400-10269600	Enhancers	Fetal Intestine Large	intestine
33	chr1:10269400-10269600	Enhancers	Fetal Intestine Small	intestine
34	chr1:10269400-10269600	Enhancers	Fetal Stomach	stomach
35	chr1:10269400-10269600	Flanking Active TSS	GM12878-XiMat	blood
36	chr1:10269400-10269600	Enhancers	Hela-S3	cervix
37	chr1:10269400-10269600	Enhancers	HSMMtube	muscle
38	chr1:10269400-10269600	Enhancers	HUVEC	blood vessel
39	chr1:10269400-10269600	Enhancers	NH-A	brain
40	chr1:10269400-10269600	Enhancers	NHEK	skin
41	chr1:10269400-10269600	Enhancers	NHLF	lung
42	chr1:10269400-10269600	Enhancers	Osteobl	bone
43	chr1:10269400-10269800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
44	chr1:10269400-10269800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr1:10269400-10269800	Enhancers	Primary T helper naive cells from peripheral blood	blood
46	chr1:10269400-10269800	Active TSS	Primary T helper naive cells fromperipheralblood	blood
47	chr1:10269400-10269800	Enhancers	Primary T helper cells fromperipheralblood	blood
48	chr1:10269400-10269800	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
49	chr1:10269400-10269800	Enhancers	Liver	Liver
50	chr1:10269400-10269800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links