Variant report

Variant	rs13065565
Chromosome Location	chr3:135889651-135889652
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:135889455..135892503-chr3:135914551..135918810,3	K562	blood:
2	chr3:135885984..135890346-chr3:135913669..135917315,5	MCF-7	breast:
3	chr3:135887141..135889698-chr3:135896091..135898192,2	K562	blood:
4	chr3:135888357..135890199-chr3:135968002..135970142,2	MCF-7	breast:
5	chr3:135868668..135870435-chr3:135888609..135890822,2	MCF-7	breast:
6	chr3:135889222..135891292-chr3:136469773..136472240,2	K562	blood:

Variant related genes	Relation type
ENSG00000114054	Chromatin interaction
ENSG00000118007	Chromatin interaction
ENSG00000261758	Chromatin interaction
ENSG00000174579	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs13071085	0.83[AFR][1000 genomes]
rs35087366	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[AFR][1000 genomes]
rs61789562	1.00[AFR][1000 genomes]
rs61789643	0.83[AFR][1000 genomes]
rs6762209	1.00[AFR][1000 genomes]
rs71336055	0.83[AFR][1000 genomes]
rs7650071	1.00[ASW][hapmap];0.82[CEU][hapmap];1.00[CHD][hapmap];0.90[MEX][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];0.83[AFR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135862000-135904800	Weak transcription	Hela-S3	cervix
2	chr3:135870800-135895200	Weak transcription	Fetal Intestine Small	intestine
3	chr3:135871000-135897600	Weak transcription	Aorta	Aorta
4	chr3:135871200-135905000	Weak transcription	Fetal Stomach	stomach
5	chr3:135872200-135891400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:135872800-135903600	Weak transcription	Thymus	Thymus
7	chr3:135873600-135889800	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr3:135874800-135890200	Weak transcription	Spleen	Spleen
9	chr3:135874800-135897600	Weak transcription	Gastric	stomach
10	chr3:135876400-135890200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr3:135879000-135890000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr3:135880000-135906600	Enhancers	Primary T helper cells fromperipheralblood	blood
13	chr3:135881400-135890200	Weak transcription	Lung	lung
14	chr3:135882600-135890000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
15	chr3:135882800-135890200	Weak transcription	Esophagus	oesophagus
16	chr3:135882800-135890200	Weak transcription	Right Atrium	heart
17	chr3:135882800-135893000	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr3:135882800-135905200	Weak transcription	Fetal Muscle Leg	muscle
19	chr3:135883200-135890000	Weak transcription	Adipose Nuclei	Adipose
20	chr3:135883400-135889800	Weak transcription	Brain Angular Gyrus	brain
21	chr3:135883400-135890000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr3:135883400-135892400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr3:135883400-135901800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr3:135883800-135890200	Weak transcription	Brain Anterior Caudate	brain
25	chr3:135883800-135901200	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr3:135884000-135890200	Weak transcription	Left Ventricle	heart
27	chr3:135884000-135891600	Weak transcription	Psoas Muscle	Psoas
28	chr3:135884200-135890200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr3:135885600-135889800	Weak transcription	Brain Hippocampus Middle	brain
30	chr3:135885600-135890200	Weak transcription	Pancreas	Pancrea
31	chr3:135885600-135890200	Weak transcription	Right Ventricle	heart
32	chr3:135885600-135890200	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr3:135885600-135890200	Weak transcription	HSMMtube	muscle
34	chr3:135885600-135897800	Weak transcription	Fetal Thymus	thymus
35	chr3:135885800-135889800	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr3:135885800-135890000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr3:135885800-135890000	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr3:135885800-135890200	Weak transcription	Brain Substantia Nigra	brain
39	chr3:135885800-135893400	Weak transcription	Ovary	ovary
40	chr3:135886000-135889800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr3:135886000-135889800	Weak transcription	Liver	Liver
42	chr3:135886000-135889800	Weak transcription	Colon Smooth Muscle	Colon
43	chr3:135886000-135890000	Weak transcription	A549	lung
44	chr3:135886000-135890200	Weak transcription	NHLF	lung
45	chr3:135886200-135890000	Weak transcription	HUES64 Cell Line	embryonic stem cell
46	chr3:135886200-135892000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr3:135886400-135891000	Weak transcription	Primary B cells from cord blood	blood
48	chr3:135886600-135889800	Weak transcription	NHDF-Ad	bronchial
49	chr3:135887000-135890000	Weak transcription	Dnd41	blood
50	chr3:135887200-135890000	Weak transcription	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links