Variant report

Variant	rs631538
Chromosome Location	chr10:5935267-5935268
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr10:5934911-5935398	HepG2	liver:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:5935195..5937102-chr10:6243588..6245241,2	MCF-7	breast:
2	chr10:5726920..5728949-chr10:5933520..5936437,2	K562	blood:
3	chr10:5852595..5861125-chr10:5921136..5936216,31	MCF-7	breast:
4	chr10:5934107..5937505-chr10:5944279..5947723,3	K562	blood:
5	chr10:5933201..5936012-chr10:6019635..6021875,2	K562	blood:
6	chr10:5853439..5857708-chr10:5926443..5936823,24	K562	blood:
7	chr10:5933821..5935712-chr2:151735859..151737363,2	K562	blood:

No data

Variant related genes	Relation type
FBXO18	TF binding region
ANKRD16	TF binding region
ENSG00000170525	Chromatin interaction
ENSG00000272764	Chromatin interaction
ENSG00000057608	Chromatin interaction
ENSG00000108021	Chromatin interaction
ENSG00000134470	Chromatin interaction
ENSG00000134452	Chromatin interaction
ENSG00000213994	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs1052420	0.88[ASN][1000 genomes]
rs1707228	0.88[ASN][1000 genomes]
rs2669124	0.85[ASN][1000 genomes]
rs2761269	0.88[ASN][1000 genomes]
rs2942348	0.88[ASN][1000 genomes]
rs2985043	0.88[ASN][1000 genomes]
rs2985044	0.88[ASN][1000 genomes]
rs584000	0.87[ASN][1000 genomes]
rs587620	0.88[ASN][1000 genomes]
rs587655	0.88[ASN][1000 genomes]
rs593026	0.85[ASN][1000 genomes]
rs596156	0.85[ASN][1000 genomes]
rs599394	0.88[ASN][1000 genomes]
rs600706	0.87[ASN][1000 genomes]
rs608197	0.88[ASN][1000 genomes]
rs609269	0.85[ASN][1000 genomes]
rs610335	0.88[ASN][1000 genomes]
rs615879	0.88[ASN][1000 genomes]
rs617165	0.88[ASN][1000 genomes]
rs622252	0.88[ASN][1000 genomes]
rs622488	0.88[ASN][1000 genomes]
rs625073	0.86[ASN][1000 genomes]
rs626040	0.88[ASN][1000 genomes]
rs627303	0.88[ASN][1000 genomes]
rs628175	0.87[ASN][1000 genomes]
rs628219	0.87[ASN][1000 genomes]
rs628234	0.87[ASN][1000 genomes]
rs628844	0.88[ASN][1000 genomes]
rs644474	0.80[ASN][1000 genomes]
rs646406	0.85[ASN][1000 genomes]
rs646490	0.87[ASN][1000 genomes]
rs647391	0.87[ASN][1000 genomes]
rs661411	0.88[ASN][1000 genomes]
rs662701	0.88[ASN][1000 genomes]
rs664577	0.85[ASN][1000 genomes]
rs664842	0.88[ASN][1000 genomes]
rs666831	0.85[ASN][1000 genomes]
rs672219	0.84[ASN][1000 genomes]
rs673496	0.85[ASN][1000 genomes]
rs673678	0.88[ASN][1000 genomes]
rs675416	0.85[ASN][1000 genomes]
rs679610	0.87[ASN][1000 genomes]
rs684557	0.87[ASN][1000 genomes]
rs687191	0.88[ASN][1000 genomes]
rs792342	0.85[ASN][1000 genomes]
rs792347	0.85[ASN][1000 genomes]
rs792349	0.87[ASN][1000 genomes]
rs811561	0.88[ASN][1000 genomes]
rs9329328	0.85[ASN][1000 genomes]
rs9424023	0.88[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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	nsv825229	chr10:5886905-5967697	Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
6	nsv466724	chr10:5920836-5938544	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases
7	nsv549906	chr10:5920836-5938544	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:5933200-5936000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr10:5933200-5936000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:5933200-5936000	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr10:5933200-5936000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:5933200-5936000	Weak transcription	Fetal Muscle Trunk	muscle
6	chr10:5933200-5936400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr10:5933200-5948200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr10:5933200-5949800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr10:5933200-5977000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr10:5933400-5935400	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr10:5933400-5935400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr10:5933400-5935400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:5933400-5935400	Enhancers	Right Atrium	heart
14	chr10:5933400-5935400	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr10:5933400-5935600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr10:5933400-5935600	Enhancers	Psoas Muscle	Psoas
17	chr10:5933400-5936000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr10:5933400-5936000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr10:5933400-5936000	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr10:5933400-5936000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr10:5933400-5936000	Weak transcription	Esophagus	oesophagus
22	chr10:5933400-5936400	Weak transcription	Colonic Mucosa	Colon
23	chr10:5933400-5936400	Weak transcription	Fetal Kidney	kidney
24	chr10:5933400-5936600	Weak transcription	HSMMtube	muscle
25	chr10:5933400-5938800	Enhancers	Primary T helper cells PMA-I stimulated	--
26	chr10:5933400-5948200	Weak transcription	Ovary	ovary
27	chr10:5933400-5948400	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr10:5933400-5949800	Weak transcription	Fetal Brain Male	brain
29	chr10:5933600-5935400	Weak transcription	Primary B cells from cord blood	blood
30	chr10:5933600-5935600	Enhancers	Skeletal Muscle Female	skeletal muscle
31	chr10:5933600-5936000	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr10:5933600-5936000	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr10:5933600-5936000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr10:5933600-5936000	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr10:5933600-5936200	Weak transcription	A549	lung
36	chr10:5933600-5937000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr10:5933600-5948200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
38	chr10:5933600-5951600	Weak transcription	Stomach Mucosa	stomach
39	chr10:5933800-5935400	Genic enhancers	Fetal Lung	lung
40	chr10:5933800-5935600	Weak transcription	Placenta	Placenta
41	chr10:5933800-5936000	Weak transcription	Fetal Stomach	stomach
42	chr10:5933800-5936400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr10:5933800-5936400	Enhancers	Right Ventricle	heart
44	chr10:5933800-5939200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr10:5933800-5941200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr10:5934000-5935400	Weak transcription	Primary hematopoietic stem cells	blood
47	chr10:5934000-5935400	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr10:5934000-5935800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr10:5934000-5936000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
50	chr10:5934000-5936000	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links