Variant report

Variant	rs6838490
Chromosome Location	chr4:102049029-102049030
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:102048414..102050219-chr4:102262763..102264265,2	MCF-7	breast:

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs17030836	1.00[AMR][1000 genomes]
rs17031147	1.00[AMR][1000 genomes]
rs17240082	1.00[YRI][hapmap]
rs61230063	1.00[AMR][1000 genomes]
rs6826452	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931418	chr4:101500167-102443207	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv879672	chr4:101989816-102058842	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv999741	chr4:102009017-102454115	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
4	nsv537199	chr4:102009017-102454115	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1004766	chr4:102009017-102713765	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv537200	chr4:102009017-102713765	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:102025600-102049200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr4:102026200-102068600	Weak transcription	Primary T cells from cord blood	blood
3	chr4:102030200-102049200	Weak transcription	Primary hematopoietic stem cells	blood
4	chr4:102030400-102049600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr4:102036600-102049600	Weak transcription	Fetal Intestine Small	intestine
6	chr4:102044600-102049600	Weak transcription	Spleen	Spleen
7	chr4:102046400-102049200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr4:102046400-102049400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr4:102046400-102049400	Enhancers	NHDF-Ad	bronchial
10	chr4:102046400-102050400	Enhancers	Skeletal Muscle Female	skeletal muscle
11	chr4:102046400-102051400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr4:102046600-102049200	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr4:102046600-102049600	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr4:102046600-102058600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr4:102046800-102049600	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr4:102046800-102058600	Weak transcription	Gastric	stomach
17	chr4:102047000-102049200	Enhancers	Muscle Satellite Cultured Cells	--
18	chr4:102047600-102051600	Enhancers	Primary B cells from peripheral blood	blood
19	chr4:102047800-102049200	Enhancers	Colon Smooth Muscle	Colon
20	chr4:102047800-102049200	Enhancers	HSMMtube	muscle
21	chr4:102048000-102049400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr4:102048400-102049200	Enhancers	GM12878-XiMat	blood
23	chr4:102048400-102049200	Enhancers	HMEC	breast
24	chr4:102048400-102049400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr4:102048400-102050200	Enhancers	Primary B cells from cord blood	blood
26	chr4:102048400-102050400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
27	chr4:102048600-102050200	Enhancers	Primary neutrophils fromperipheralblood	blood
28	chr4:102048800-102049200	Enhancers	Primary T helper cells fromperipheralblood	blood
29	chr4:102048800-102049400	Weak transcription	Left Ventricle	heart
30	chr4:102048800-102049800	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr4:102048800-102058600	Weak transcription	Aorta	Aorta
32	chr4:102049000-102049200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
33	chr4:102049000-102049400	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr4:102049000-102049400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
35	chr4:102049000-102056600	Weak transcription	Osteobl	bone

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