Variant report

Variant	rs31280
Chromosome Location	chr5:96096130-96096131
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:96093830..96096336-chr5:96098370..96101209,3	K562	blood:
2	chr3:74669824..74670375-chr5:96095986..96096774,2	MCF-7	breast:
3	chr5:96095035..96097492-chr5:96101981..96103537,2	MCF-7	breast:
4	chr5:96075524..96077590-chr5:96095801..96098092,2	MCF-7	breast:
5	chr5:96094343..96096163-chr5:96142370..96145319,2	MCF-7	breast:
6	chr5:96085188..96087198-chr5:96094880..96096512,2	K562	blood:

Variant related genes	Relation type
ENSG00000153113	Chromatin interaction
ENSG00000164307	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs26345	1.00[CEU][hapmap];0.98[EUR][1000 genomes]
rs26508	1.00[CEU][hapmap];0.87[GIH][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs26513	0.87[AMR][1000 genomes]
rs27429	1.00[CEU][hapmap];0.93[GIH][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs27765	1.00[CEU][hapmap];0.93[GIH][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs27851	1.00[CEU][hapmap];0.93[GIH][hapmap];0.98[EUR][1000 genomes]
rs27944	1.00[CEU][hapmap];0.93[GIH][hapmap];0.98[EUR][1000 genomes]
rs27962	0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015173	chr5:95987366-96153392	Genic enhancers Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
2	nsv432755	chr5:95987984-96657483	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv830411	chr5:96045168-96187817	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv598962	chr5:96057891-96893164	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
5	nsv516293	chr5:96070205-96216387	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
6	nsv948703	chr5:96078309-96368839	Weak transcription Flanking Active TSS Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
7	nsv1027472	chr5:96081592-96337550	Strong transcription Genic enhancers Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
8	nsv1028741	chr5:96082401-96372165	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
9	nsv949058	chr5:96082433-96390619	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
10	nsv598963	chr5:96084776-96363407	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:96057800-96098600	Weak transcription	Fetal Brain Male	brain
2	chr5:96063000-96126200	Weak transcription	Brain Germinal Matrix	brain
3	chr5:96068200-96100400	Strong transcription	Liver	Liver
4	chr5:96068400-96138200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr5:96068600-96130000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr5:96070200-96116400	Strong transcription	Rectal Mucosa Donor 29	rectum
7	chr5:96071000-96112800	Strong transcription	Hela-S3	cervix
8	chr5:96071400-96113000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr5:96071400-96126600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr5:96071600-96103200	Weak transcription	H1 Cell Line	embryonic stem cell
11	chr5:96072600-96115600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr5:96073400-96115600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr5:96075200-96120400	Weak transcription	Fetal Brain Female	brain
14	chr5:96078000-96111200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
15	chr5:96079400-96115600	Strong transcription	HMEC	breast
16	chr5:96079400-96126600	Strong transcription	Monocytes-CD14+_RO01746	blood
17	chr5:96079600-96112800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr5:96079600-96115400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr5:96079600-96115600	Strong transcription	NHDF-Ad	bronchial
20	chr5:96079600-96123600	Strong transcription	Placenta	Placenta
21	chr5:96079600-96126400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr5:96079600-96126600	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr5:96079600-96126600	Strong transcription	Primary monocytes fromperipheralblood	blood
24	chr5:96082400-96098400	Weak transcription	Dnd41	blood
25	chr5:96083800-96108800	Strong transcription	Duodenum Mucosa	Duodenum
26	chr5:96083800-96116400	Strong transcription	Rectal Mucosa Donor 31	rectum
27	chr5:96085400-96098600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr5:96086200-96100200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr5:96087200-96113800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr5:96088000-96104200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr5:96088800-96107400	Strong transcription	A549	lung
32	chr5:96089000-96097400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr5:96089200-96137000	Strong transcription	Primary neutrophils fromperipheralblood	blood
34	chr5:96090400-96098000	Weak transcription	Right Ventricle	heart
35	chr5:96090400-96098200	Weak transcription	HUES64 Cell Line	embryonic stem cell
36	chr5:96090400-96110000	Strong transcription	HUVEC	blood vessel
37	chr5:96092200-96100200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
38	chr5:96092800-96098800	Weak transcription	Small Intestine	intestine
39	chr5:96092800-96126600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr5:96093000-96098400	Weak transcription	Gastric	stomach
41	chr5:96093000-96100200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr5:96093000-96100200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr5:96093000-96100600	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr5:96093200-96097200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
45	chr5:96093200-96098200	Weak transcription	Fetal Kidney	kidney
46	chr5:96093400-96097400	Weak transcription	NHEK	skin
47	chr5:96093400-96098200	Weak transcription	Primary T cells from cord blood	blood
48	chr5:96093400-96098400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr5:96093400-96098600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
50	chr5:96093400-96098600	Weak transcription	Thymus	Thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links