Variant report

Variant	rs5745583
Chromosome Location	chr6:33546121-33546122
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33391848..33395045-chr6:33544542..33547433,3	MCF-7	breast:
2	chr6:33545816..33547496-chr6:33675270..33677360,2	K562	blood:
3	chr6:33420831..33423204-chr6:33545367..33547352,2	MCF-7	breast:
4	chr6:33543423..33546353-chr6:33546588..33548866,2	K562	blood:
5	chr6:33420326..33423381-chr6:33545501..33547721,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000030110	Chromatin interaction
ENSG00000213588	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs28634082	1.00[AMR][1000 genomes]
rs4987115	1.00[ASN][1000 genomes]
rs5745573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs5745596	1.00[CHB][hapmap];1.00[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	nsv462896	chr6:33534880-33588147	Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers 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 target site	20 gene(s)	inside rSNPs	diseases
2	nsv602833	chr6:33534880-33588147	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv885770	chr6:33543409-33614127	Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	34 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	chr6:33539200-33547200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr6:33539600-33546200	Weak transcription	NHDF-Ad	bronchial
3	chr6:33539600-33546400	Weak transcription	Fetal Brain Male	brain
4	chr6:33539600-33547000	Weak transcription	Fetal Kidney	kidney
5	chr6:33539800-33546400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr6:33539800-33547000	Weak transcription	Psoas Muscle	Psoas
7	chr6:33540000-33546400	Strong transcription	Fetal Stomach	stomach
8	chr6:33541200-33546400	Strong transcription	Cortex derived primary cultured neurospheres	brain
9	chr6:33541600-33546200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr6:33541600-33546600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:33541800-33546200	Strong transcription	NHLF	lung
12	chr6:33542200-33546200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr6:33543200-33546400	Weak transcription	A549	lung
14	chr6:33543400-33546600	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:33543400-33547000	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr6:33543400-33547200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:33543600-33546600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:33543600-33547200	Weak transcription	HSMMtube	muscle
19	chr6:33543800-33546600	Weak transcription	Fetal Lung	lung
20	chr6:33544000-33547200	Weak transcription	Ovary	ovary
21	chr6:33544400-33547000	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:33544600-33546200	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:33544600-33546200	Genic enhancers	Spleen	Spleen
24	chr6:33544600-33546400	Strong transcription	H9 Cell Line	embryonic stem cell
25	chr6:33544600-33546400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr6:33544600-33546400	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr6:33544600-33546400	Weak transcription	NH-A	brain
28	chr6:33544600-33546600	Genic enhancers	Brain Anterior Caudate	brain
29	chr6:33544600-33546600	Transcr. at gene 5' and 3'	NHEK	skin
30	chr6:33544600-33546800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr6:33544600-33547400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
32	chr6:33544600-33547600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
33	chr6:33544800-33546200	Genic enhancers	Muscle Satellite Cultured Cells	--
34	chr6:33544800-33546400	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr6:33544800-33546800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr6:33544800-33548000	Transcr. at gene 5' and 3'	Primary T helper 17 cells PMA-I stimulated	--
37	chr6:33545000-33546200	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
38	chr6:33545000-33546200	Flanking Active TSS	Duodenum Mucosa	Duodenum
39	chr6:33545000-33546400	Genic enhancers	Lung	lung
40	chr6:33545000-33546400	Enhancers	Right Atrium	heart
41	chr6:33545000-33546600	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
42	chr6:33545200-33546200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr6:33545200-33546200	Genic enhancers	K562	blood
44	chr6:33545200-33546400	Weak transcription	H1 Cell Line	embryonic stem cell
45	chr6:33545200-33546400	Transcr. at gene 5' and 3'	Primary hematopoietic stem cells short term culture	blood
46	chr6:33545200-33546400	Genic enhancers	Brain Inferior Temporal Lobe	brain
47	chr6:33545200-33546400	Genic enhancers	Sigmoid Colon	Sigmoid Colon
48	chr6:33545200-33546600	Genic enhancers	Fetal Muscle Trunk	muscle
49	chr6:33545200-33546800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr6:33545200-33546800	Transcr. at gene 5' and 3'	Colonic Mucosa	Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links