Variant report

Variant	rs35075544
Chromosome Location	chr3:48882432-48882433
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:48881429..48883622-chr3:49053411..49055620,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178149	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs13073126	1.00[EUR][1000 genomes]
rs13073962	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34581457	1.00[EUR][1000 genomes]
rs34798641	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34812097	1.00[CHD][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35527042	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71324925	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71324930	1.00[EUR][1000 genomes]
rs71324936	1.00[EUR][1000 genomes]
rs71615479	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3487342	chr3:48823957-48960475	Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	esv3487343	chr3:48823963-48960381	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	39 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	chr3:48810000-48882800	Weak transcription	Fetal Brain Female	brain
2	chr3:48820600-48882800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:48826800-48882800	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr3:48850600-48882600	Weak transcription	Primary T cells from cord blood	blood
5	chr3:48850800-48882600	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr3:48850800-48882600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
7	chr3:48855800-48884000	Weak transcription	Primary hematopoietic stem cells	blood
8	chr3:48857400-48882600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:48857600-48882600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
10	chr3:48858000-48882600	Weak transcription	Brain Germinal Matrix	brain
11	chr3:48858600-48882800	Weak transcription	Brain Cingulate Gyrus	brain
12	chr3:48858800-48882600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr3:48858800-48882600	Weak transcription	Stomach Smooth Muscle	stomach
14	chr3:48858800-48882800	Weak transcription	Gastric	stomach
15	chr3:48859200-48882800	Weak transcription	Lung	lung
16	chr3:48864200-48882800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr3:48864200-48883200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr3:48864600-48882600	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr3:48864600-48882800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr3:48865200-48882800	Weak transcription	NHLF	lung
21	chr3:48865800-48882600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:48868200-48882600	Weak transcription	Duodenum Mucosa	Duodenum
23	chr3:48868400-48882800	Weak transcription	Rectal Smooth Muscle	rectum
24	chr3:48868600-48882600	Weak transcription	Brain Angular Gyrus	brain
25	chr3:48868600-48882600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr3:48868600-48882600	Weak transcription	HMEC	breast
27	chr3:48868600-48883000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr3:48868600-48883000	Weak transcription	Fetal Muscle Trunk	muscle
29	chr3:48869000-48882600	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr3:48869000-48882600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr3:48869000-48882800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr3:48870000-48882600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr3:48870200-48883000	Weak transcription	Colonic Mucosa	Colon
34	chr3:48870600-48882600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr3:48870600-48882600	Weak transcription	Brain Substantia Nigra	brain
36	chr3:48870800-48882600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr3:48871800-48883000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr3:48872200-48882600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
39	chr3:48872200-48883000	Weak transcription	Monocytes-CD14+_RO01746	blood
40	chr3:48872600-48882800	Weak transcription	Fetal Muscle Leg	muscle
41	chr3:48873800-48882800	Weak transcription	HSMMtube	muscle
42	chr3:48874000-48882600	Weak transcription	Primary neutrophils fromperipheralblood	blood
43	chr3:48874200-48882800	Weak transcription	NHEK	skin
44	chr3:48874800-48882800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr3:48876000-48882600	Weak transcription	Fetal Stomach	stomach
46	chr3:48876200-48882800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr3:48876800-48882600	Weak transcription	Fetal Intestine Small	intestine
48	chr3:48877600-48882600	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr3:48881400-48882600	Weak transcription	Primary T cells fromperipheralblood	blood
50	chr3:48882400-48882600	Active TSS	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links