Variant report

Variant	rs10821413
Chromosome Location	chr9:97669316-97669317
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97666485..97669668-chr9:97669881..97673620,4	MCF-7	breast:
2	chr9:97668089..97669647-chr9:97673227..97674945,2	MCF-7	breast:
3	chr9:97668825..97671270-chr9:97677329..97679201,2	MCF-7	breast:
4	chr9:97668411..97670589-chr9:97765288..97767393,2	MCF-7	breast:
5	chr9:97577751..97580681-chr9:97667871..97670064,2	MCF-7	breast:
6	chr9:97667630..97670627-chr9:97680732..97685586,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10081676	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10217143	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10761361	0.93[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10821398	0.83[YRI][hapmap]
rs10821410	0.90[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10993344	0.81[CEU][hapmap]
rs10993387	0.90[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12338409	0.85[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12338859	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12344211	0.85[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12347649	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1867102	0.85[CEU][hapmap];0.84[CHB][hapmap];0.91[YRI][hapmap]
rs4743969	0.86[YRI][hapmap]
rs4743974	0.84[AMR][1000 genomes]
rs4744386	0.86[YRI][hapmap]
rs4744411	0.81[CHB][hapmap]
rs4744412	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7847277	0.86[YRI][hapmap]
rs7848139	0.81[YRI][hapmap]
rs7862219	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7870160	0.89[CEU][hapmap];0.86[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9802263	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97633400-97671800	Weak transcription	Esophagus	oesophagus
2	chr9:97660800-97702400	Weak transcription	Primary B cells from cord blood	blood
3	chr9:97661600-97686200	Weak transcription	Primary T cells from cord blood	blood
4	chr9:97662400-97678600	Enhancers	Brain Substantia Nigra	brain
5	chr9:97662600-97669600	Weak transcription	Right Atrium	heart
6	chr9:97662600-97670000	Weak transcription	Fetal Intestine Small	intestine
7	chr9:97662600-97680400	Enhancers	Brain Hippocampus Middle	brain
8	chr9:97662800-97670000	Weak transcription	Fetal Intestine Large	intestine
9	chr9:97663400-97671200	Enhancers	HepG2	liver
10	chr9:97663600-97669600	Weak transcription	Fetal Stomach	stomach
11	chr9:97663800-97669600	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr9:97664400-97669600	Weak transcription	Colon Smooth Muscle	Colon
13	chr9:97664800-97669600	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr9:97664800-97669600	Weak transcription	Psoas Muscle	Psoas
15	chr9:97664800-97670000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr9:97664800-97670000	Weak transcription	Rectal Smooth Muscle	rectum
17	chr9:97664800-97671800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr9:97664800-97672000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr9:97664800-97672200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr9:97664800-97673400	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr9:97664800-97673400	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr9:97664800-97674200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr9:97665200-97674200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr9:97665400-97674200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr9:97666000-97672000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr9:97666000-97678600	Enhancers	Brain Cingulate Gyrus	brain
27	chr9:97666600-97674400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr9:97666800-97669400	Weak transcription	Aorta	Aorta
29	chr9:97667200-97669400	Weak transcription	Osteobl	bone
30	chr9:97667200-97670200	Weak transcription	NH-A	brain
31	chr9:97667400-97669600	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr9:97667400-97669600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr9:97667400-97669800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr9:97667400-97670400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:97667400-97674600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr9:97667800-97675200	Enhancers	Brain Anterior Caudate	brain
37	chr9:97668000-97669400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr9:97668000-97669800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr9:97668000-97669800	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr9:97668000-97670000	Weak transcription	NHLF	lung
41	chr9:97668000-97670400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr9:97668000-97670400	Enhancers	A549	lung
43	chr9:97668000-97672800	Weak transcription	Brain Germinal Matrix	brain
44	chr9:97668200-97669800	Weak transcription	NHDF-Ad	bronchial
45	chr9:97668200-97671000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr9:97668400-97670800	Enhancers	Ovary	ovary
47	chr9:97668400-97670800	Enhancers	Pancreas	Pancrea
48	chr9:97668400-97671200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr9:97668800-97671200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr9:97668800-97672000	Enhancers	Brain Inferior Temporal Lobe	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links