Variant report

Variant	rs57266141
Chromosome Location	chr10:5858291-5858292
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:25)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:25 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SRF	chr10:5858208-5858515	GM12878	blood:	n/a	n/a
2	POLR2A	chr10:5857818-5858447	GM12891	blood:	n/a	n/a
3	BCLAF1	chr10:5857918-5858595	GM12878	blood:	n/a	n/a
4	EBF1	chr10:5858155-5858487	GM12878	blood:	n/a	n/a
5	SRF	chr10:5858242-5858417	GM12878	blood:	n/a	n/a
6	POLR2A	chr10:5857914-5858457	H1-hESC	embryonic stem cell:	n/a	n/a
7	SPI1	chr10:5858222-5858473	GM12878	blood:	n/a	chr10:5858374-5858387
8	ELK1	chr10:5858212-5858409	GM12878	blood:	n/a	n/a
9	EP300	chr10:5858222-5858523	GM12878	blood:	n/a	n/a
10	POLR2A	chr10:5854147-5859027	GM12891	blood:	n/a	n/a
11	POLR2A	chr10:5858069-5858405	Hela-S3	cervix:	n/a	n/a
12	POLR2A	chr10:5858141-5858380	GM12891	blood:	n/a	n/a
13	EBF1	chr10:5858271-5858434	GM12878	blood:	n/a	n/a
14	SPI1	chr10:5858174-5858406	GM12891	blood:	n/a	chr10:5858374-5858387
15	RUNX3	chr10:5858113-5858518	GM12878	blood:	n/a	n/a
16	POLR2A	chr10:5858037-5858415	MCF-7	breast:	n/a	n/a
17	BHLHE40	chr10:5858215-5858422	GM12878	blood:	n/a	n/a
18	POLR2A	chr10:5854462-5858661	Raji	blood:	n/a	n/a
19	MTA3	chr10:5857895-5858611	GM12878	blood:	n/a	n/a
20	SRF	chr10:5858221-5858419	GM12878	blood:	n/a	n/a
21	POLR2A	chr10:5858175-5858298	K562	blood:	n/a	n/a
22	POLR2A	chr10:5858066-5858478	MCF10A-Er-Src	breast:	n/a	n/a
23	NFYB	chr10:5858173-5858474	GM12878	blood:	n/a	n/a
24	POLR2A	chr10:5857826-5858616	GM12892	blood:	n/a	n/a
25	RUNX3	chr10:5858119-5858571	GM12878	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:5725503..5729426-chr10:5853777..5860412,5	MCF-7	breast:
2	chr10:5851570..5858995-chr10:5881654..5887342,9	K562	blood:
3	chr10:5857210..5863651-chr10:5869000..5872361,6	MCF-7	breast:
4	chr10:5858242..5861090-chr10:5872989..5875709,2	MCF-7	breast:
5	chr10:5852595..5861125-chr10:5921136..5936216,31	MCF-7	breast:
6	chr10:5857495..5859789-chr10:5881654..5883847,2	K562	blood:

No data

Variant related genes	Relation type
GDI2	TF binding region
ENSG00000057608	Chromatin interaction
ENSG00000108021	Chromatin interaction
ENSG00000134461	Chromatin interaction
ENSG00000134452	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs56102348	1.00[AMR][1000 genomes]
rs73612495	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7903176	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34147	chr10:5726821-6105717	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv34061	chr10:5726821-6225187	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	nsv831775	chr10:5804335-6000849	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
5	nsv515935	chr10:5820394-5869839	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv549896	chr10:5820394-5880066	Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5856200-5862600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:5856400-5858400	Weak transcription	HSMM	muscle
3	chr10:5856400-5859000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:5856400-5859800	Weak transcription	Esophagus	oesophagus
5	chr10:5856600-5858600	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr10:5856600-5861600	Enhancers	Primary monocytes fromperipheralblood	blood
7	chr10:5856800-5858400	Weak transcription	HUES64 Cell Line	embryonic stem cell
8	chr10:5856800-5858400	Enhancers	Monocytes-CD14+_RO01746	blood
9	chr10:5857000-5858400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr10:5857000-5858800	Weak transcription	Thymus	Thymus
11	chr10:5857000-5858800	Weak transcription	A549	lung
12	chr10:5857000-5860800	Weak transcription	Fetal Muscle Trunk	muscle
13	chr10:5857000-5862200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr10:5857000-5863600	Enhancers	Primary B cells from cord blood	blood
15	chr10:5857000-5864200	Enhancers	Primary B cells from peripheral blood	blood
16	chr10:5857000-5866800	Weak transcription	NHLF	lung
17	chr10:5857200-5859800	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr10:5857400-5858800	Weak transcription	HepG2	liver
19	chr10:5857400-5859400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr10:5857400-5859800	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr10:5857400-5860000	Weak transcription	Primary hematopoietic stem cells	blood
22	chr10:5857400-5860800	Weak transcription	Spleen	Spleen
23	chr10:5857400-5861000	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr10:5857400-5871400	Weak transcription	Pancreas	Pancrea
25	chr10:5857800-5859400	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr10:5858000-5858400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
27	chr10:5858200-5858400	Enhancers	Primary T cells from cord blood	blood
28	chr10:5858200-5858400	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr10:5858200-5858400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
30	chr10:5858200-5858800	Flanking Active TSS	GM12878-XiMat	blood
31	chr10:5858200-5859400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr10:5858200-5859600	Enhancers	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links