Variant report

Variant	rs3758261
Chromosome Location	chr9:100936312-100936313
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100932527..100936703-chr9:100952110..100957364,6	MCF-7	breast:
2	chr9:100858584..100860538-chr9:100935257..100937803,2	MCF-7	breast:
3	chr9:100934229..100937131-chr9:101015572..101018332,2	MCF-7	breast:
4	chr9:100934419..100936711-chr9:100950978..100955014,5	MCF-7	breast:
5	chr9:100934290..100936965-chr9:101016512..101018556,3	K562	blood:
6	chr9:100936160..100938989-chr9:100952590..100955051,2	K562	blood:

Variant related genes	Relation type
ENSG00000106789	Chromatin interaction
ENSG00000095383	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10818540	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10985266	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10985279	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10985302	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs3758262	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3780456	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7023194	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7032570	0.98[ASN][1000 genomes]
rs7847003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7868004	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[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	nsv482635	chr9:100775549-100953239	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer 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	36 gene(s)	inside rSNPs	diseases
2	nsv893613	chr9:100885779-100943397	Weak transcription Enhancers Bivalent Enhancer Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1053729	chr9:100909554-100997718	Weak transcription Strong transcription Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv520067	chr9:100927161-100978542	Genic enhancers Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases
5	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100920400-100942200	Weak transcription	Primary T cells from cord blood	blood
2	chr9:100924600-100939000	Enhancers	Duodenum Mucosa	Duodenum
3	chr9:100927000-100936800	Weak transcription	Thymus	Thymus
4	chr9:100930800-100938000	Genic enhancers	Fetal Intestine Small	intestine
5	chr9:100931400-100937400	Weak transcription	Spleen	Spleen
6	chr9:100931800-100954400	Weak transcription	Right Atrium	heart
7	chr9:100932000-100937400	Weak transcription	Primary B cells from cord blood	blood
8	chr9:100932000-100937400	Enhancers	HepG2	liver
9	chr9:100932200-100937600	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr9:100932400-100937400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr9:100932400-100937600	Weak transcription	Monocytes-CD14+_RO01746	blood
12	chr9:100932600-100937200	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr9:100932800-100951200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr9:100933000-100936400	Weak transcription	Primary neutrophils fromperipheralblood	blood
15	chr9:100933400-100951400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr9:100933600-100942600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr9:100933800-100937600	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr9:100933800-100942400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
19	chr9:100933800-100950200	Weak transcription	Colonic Mucosa	Colon
20	chr9:100933800-100951400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
21	chr9:100934400-100954000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
22	chr9:100934600-100937000	Enhancers	Small Intestine	intestine
23	chr9:100935000-100936600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:100935200-100937000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr9:100935200-100937200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr9:100935200-100937200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr9:100935200-100947800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr9:100935400-100936800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr9:100935400-100937000	Weak transcription	Fetal Thymus	thymus
30	chr9:100935400-100937400	Weak transcription	NHEK	skin
31	chr9:100935400-100938400	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr9:100935400-100953000	Weak transcription	HUES64 Cell Line	embryonic stem cell
33	chr9:100935400-100953000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr9:100935400-100953200	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr9:100935600-100936800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr9:100935600-100937200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr9:100935600-100937400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr9:100935600-100937400	Weak transcription	Esophagus	oesophagus
39	chr9:100935800-100937200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr9:100935800-100937400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr9:100935800-100937800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr9:100935800-100941400	Enhancers	Fetal Intestine Large	intestine
43	chr9:100935800-100944800	Weak transcription	Lung	lung
44	chr9:100936000-100936800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr9:100936000-100937000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr9:100936000-100937400	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr9:100936000-100937400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
48	chr9:100936000-100938200	Weak transcription	Stomach Mucosa	stomach
49	chr9:100936000-100939000	Weak transcription	Liver	Liver
50	chr9:100936000-100941600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links