Variant report

Variant	rs72831240
Chromosome Location	chr6:25414412-25414413
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs55937051	0.89[ASN][1000 genomes]
rs72831239	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72831261	0.89[ASN][1000 genomes]
rs9348677	0.88[ASN][1000 genomes]
rs9358856	0.90[ASN][1000 genomes]
rs9467504	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883485	chr6:25259137-25437986	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv883486	chr6:25260434-25422369	Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv883487	chr6:25280119-25508868	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv830612	chr6:25342408-25509758	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	esv1850810	chr6:25405576-25462543	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:25406400-25420200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:25407200-25420200	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr6:25408400-25415400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr6:25408400-25416000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr6:25408600-25417200	Weak transcription	Primary B cells from cord blood	blood
6	chr6:25409000-25419000	Weak transcription	Primary monocytes fromperipheralblood	blood
7	chr6:25409800-25415200	Enhancers	Small Intestine	intestine
8	chr6:25410400-25415600	Enhancers	Thymus	Thymus
9	chr6:25411000-25414600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:25411000-25415000	Enhancers	Primary T helper cells PMA-I stimulated	--
11	chr6:25411000-25415000	Enhancers	Primary T helper cells fromperipheralblood	blood
12	chr6:25411000-25451800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr6:25411600-25418200	Weak transcription	Lung	lung
14	chr6:25411800-25415200	Enhancers	Primary T cells from cord blood	blood
15	chr6:25412400-25416200	Enhancers	Fetal Thymus	thymus
16	chr6:25412600-25414800	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr6:25412600-25415400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr6:25412600-25415600	Enhancers	Primary hematopoietic stem cells short term culture	blood
19	chr6:25412600-25415600	Enhancers	Cortex derived primary cultured neurospheres	brain
20	chr6:25412600-25417200	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr6:25412800-25415000	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr6:25412800-25415200	Enhancers	NHDF-Ad	bronchial
23	chr6:25412800-25415600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
24	chr6:25412800-25415600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr6:25412800-25417800	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr6:25412800-25417800	Enhancers	iPS-18 Cell Line	embryonic stem cell
27	chr6:25413000-25414600	Bivalent Enhancer	Dnd41	blood
28	chr6:25413000-25415000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr6:25413000-25415200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:25413000-25415200	Enhancers	Osteobl	bone
31	chr6:25413000-25415400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr6:25413000-25415800	Enhancers	iPS-20b Cell Line	embryonic stem cell
33	chr6:25413000-25416400	Enhancers	Right Atrium	heart
34	chr6:25413000-25417800	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr6:25413000-25417800	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr6:25413200-25414800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
37	chr6:25413200-25415200	Enhancers	Adipose Nuclei	Adipose
38	chr6:25413200-25415200	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr6:25413200-25416200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr6:25413200-25418000	Enhancers	iPS-15b Cell Line	embryonic stem cell
41	chr6:25413400-25414600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr6:25413400-25414600	Weak transcription	Aorta	Aorta
43	chr6:25413400-25414600	Weak transcription	Pancreas	Pancrea
44	chr6:25413400-25414600	Enhancers	Sigmoid Colon	Sigmoid Colon
45	chr6:25413400-25414800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr6:25413400-25415200	Enhancers	H1 Cell Line	embryonic stem cell
47	chr6:25413400-25415200	Enhancers	H9 Cell Line	embryonic stem cell
48	chr6:25413400-25415200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr6:25413600-25414600	Weak transcription	Fetal Lung	lung
50	chr6:25413600-25414600	Weak transcription	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links