Variant report

Variant	rs9886856
Chromosome Location	chr9:104326399-104326400
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	chr9:104325829..104329191-chr9:104331276..104334207,4	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10120085	0.90[AFR][1000 genomes]
rs12353519	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13292046	0.88[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13293899	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17188384	0.81[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.94[YRI][hapmap];0.83[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1983812	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35168482	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7023854	0.82[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7029878	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7040320	0.80[JPT][hapmap]
rs942139	0.90[AFR][1000 genomes];0.98[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	nsv1046975	chr9:104167583-104659873	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv949579	chr9:104229820-104512923	Genic enhancers Enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1052492	chr9:104263419-104387782	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv893627	chr9:104268342-104334333	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
5	nsv831672	chr9:104300755-104480849	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104296800-104334200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:104296800-104337400	Weak transcription	Stomach Mucosa	stomach
3	chr9:104297600-104330400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:104297600-104330400	Strong transcription	HUES64 Cell Line	embryonic stem cell
5	chr9:104297800-104332600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr9:104297800-104333000	Strong transcription	Primary monocytes fromperipheralblood	blood
7	chr9:104298000-104332800	Strong transcription	Primary B cells from peripheral blood	blood
8	chr9:104298200-104328200	Strong transcription	Rectal Mucosa Donor 31	rectum
9	chr9:104298200-104333200	Strong transcription	Adipose Nuclei	Adipose
10	chr9:104298400-104333200	Strong transcription	Liver	Liver
11	chr9:104298400-104333400	Strong transcription	Monocytes-CD14+_RO01746	blood
12	chr9:104299000-104333000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr9:104299200-104330400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr9:104300800-104327000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr9:104301200-104328800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr9:104301600-104333400	Strong transcription	Duodenum Smooth Muscle	Duodenum
17	chr9:104301800-104331800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr9:104302200-104333000	Strong transcription	Primary neutrophils fromperipheralblood	blood
19	chr9:104305600-104328600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr9:104306000-104329400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr9:104306200-104328000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr9:104307000-104328400	Strong transcription	Skeletal Muscle Female	skeletal muscle
23	chr9:104310000-104326400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:104311800-104332400	Strong transcription	Fetal Intestine Large	intestine
25	chr9:104313200-104335400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr9:104315000-104334600	Weak transcription	Small Intestine	intestine
27	chr9:104318200-104327400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr9:104318200-104333400	Strong transcription	Primary B cells from cord blood	blood
29	chr9:104318400-104326400	Weak transcription	Fetal Intestine Small	intestine
30	chr9:104319200-104327000	Strong transcription	Primary hematopoietic stem cells	blood
31	chr9:104319200-104328400	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr9:104319400-104330600	Strong transcription	Brain Inferior Temporal Lobe	brain
33	chr9:104319600-104328000	Strong transcription	Left Ventricle	heart
34	chr9:104319600-104328200	Strong transcription	Ovary	ovary
35	chr9:104319600-104328600	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr9:104319600-104330800	Strong transcription	Brain Anterior Caudate	brain
37	chr9:104319600-104330800	Strong transcription	Fetal Muscle Trunk	muscle
38	chr9:104319600-104330800	Strong transcription	Fetal Muscle Leg	muscle
39	chr9:104319600-104333000	Strong transcription	Stomach Smooth Muscle	stomach
40	chr9:104320000-104326400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
41	chr9:104320600-104332600	Weak transcription	HMEC	breast
42	chr9:104320600-104333200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr9:104320800-104331600	Weak transcription	Fetal Heart	heart
44	chr9:104321600-104328600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
45	chr9:104321600-104329200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr9:104321800-104326400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr9:104321800-104329000	Strong transcription	Primary T cells fromperipheralblood	blood
48	chr9:104321800-104331000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr9:104322200-104330600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr9:104322200-104332200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links