Variant report

Variant	rs1039835
Chromosome Location	chr2:30510752-30510753
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:30508605..30511135-chr2:30512104..30514404,2	K562	blood:
2	chr2:30504654..30506690-chr2:30509029..30511575,2	K562	blood:
3	chr2:30452896..30455745-chr2:30510436..30513379,3	K562	blood:
4	chr2:30476489..30478735-chr2:30510499..30512254,2	K562	blood:
5	chr2:30509284..30511862-chr2:30512040..30514428,3	K562	blood:
6	chr2:30507657..30509657-chr2:30510028..30511916,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000213626	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10171296	1.00[CHB][hapmap]
rs10171305	1.00[CHB][hapmap]
rs1039836	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11127264	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11678385	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs12467372	1.00[ASN][1000 genomes]
rs12467407	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs12988733	1.00[ASN][1000 genomes]
rs17009315	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs57667995	0.91[ASN][1000 genomes]
rs6723650	0.90[ASN][1000 genomes]
rs6733372	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[YRI][hapmap];0.95[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7604484	1.00[CHB][hapmap]
rs9558	1.00[CHB][hapmap]
rs9967884	1.00[CHB][hapmap];0.81[ASN][1000 genomes]

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	nsv533886	chr2:30130019-31068764	ZNF genes & repeats Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer 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	32 gene(s)	inside rSNPs	diseases
2	nsv1002657	chr2:30339312-30516535	Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv833648	chr2:30505882-30696275	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:30487200-30517800	Enhancers	Primary B cells from peripheral blood	blood
2	chr2:30496600-30524200	Weak transcription	Right Atrium	heart
3	chr2:30497800-30516400	Weak transcription	Gastric	stomach
4	chr2:30501400-30510800	Enhancers	Primary B cells from cord blood	blood
5	chr2:30501800-30511000	Weak transcription	HSMM	muscle
6	chr2:30503800-30513800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr2:30507000-30516000	Weak transcription	Spleen	Spleen
8	chr2:30507600-30511000	Weak transcription	NHLF	lung
9	chr2:30507600-30512200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr2:30507600-30512600	Weak transcription	K562	blood
11	chr2:30507600-30516000	Weak transcription	Left Ventricle	heart
12	chr2:30507600-30516200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr2:30507800-30511000	Weak transcription	NHDF-Ad	bronchial
14	chr2:30509400-30511600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr2:30509400-30512200	Enhancers	HUES64 Cell Line	embryonic stem cell
16	chr2:30509600-30510800	Enhancers	Primary T cells from cord blood	blood
17	chr2:30509600-30512000	Enhancers	Primary T helper cells PMA-I stimulated	--
18	chr2:30509600-30514000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr2:30509800-30510800	Flanking Active TSS	GM12878-XiMat	blood
20	chr2:30509800-30511600	Enhancers	Primary monocytes fromperipheralblood	blood
21	chr2:30509800-30511800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
22	chr2:30509800-30511800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr2:30509800-30511800	Enhancers	Fetal Thymus	thymus
24	chr2:30509800-30512000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr2:30509800-30512200	Enhancers	iPS-18 Cell Line	embryonic stem cell
26	chr2:30509800-30512200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr2:30509800-30512400	Enhancers	HUES48 Cell Line	embryonic stem cell
28	chr2:30509800-30512400	Enhancers	Primary hematopoietic stem cells short term culture	blood
29	chr2:30509800-30514000	Enhancers	Primary hematopoietic stem cells	blood
30	chr2:30510000-30510800	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr2:30510000-30511200	Enhancers	Primary T cells fromperipheralblood	blood
32	chr2:30510000-30511200	Enhancers	Thymus	Thymus
33	chr2:30510000-30511400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
34	chr2:30510000-30511600	Enhancers	Cortex derived primary cultured neurospheres	brain
35	chr2:30510000-30511600	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
36	chr2:30510000-30511800	Enhancers	ES-I3 Cell Line	embryonic stem cell
37	chr2:30510000-30511800	Enhancers	H9 Cell Line	embryonic stem cell
38	chr2:30510000-30511800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr2:30510000-30511800	Enhancers	Primary T helper cells fromperipheralblood	blood
40	chr2:30510000-30511800	Enhancers	Primary T killer memory cells from peripheral blood	blood
41	chr2:30510000-30512000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr2:30510000-30512000	Enhancers	iPS-20b Cell Line	embryonic stem cell
43	chr2:30510000-30512000	Enhancers	Primary T helper naive cells from peripheral blood	blood
44	chr2:30510000-30512200	Enhancers	HUES6 Cell Line	embryonic stem cell
45	chr2:30510000-30512400	Enhancers	H1 Cell Line	embryonic stem cell
46	chr2:30510000-30512400	Enhancers	Fetal Lung	lung
47	chr2:30510200-30511200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
48	chr2:30510200-30514000	Enhancers	HSMMtube	muscle
49	chr2:30510400-30511200	Enhancers	Fetal Brain Female	brain
50	chr2:30510400-30512200	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links