Variant report

Variant	rs10988740
Chromosome Location	chr9:101946785-101946786
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:101736911..101737434-chr9:101946524..101947493,2	K562	blood:
2	chr9:101945788..101948395-chr9:101983472..101985266,3	MCF-7	breast:
3	chr9:101946689..101947278-chr9:103086884..103087396,2	MCF-7	breast:
4	chr9:101622672..101623296-chr9:101946632..101947533,2	MCF-7	breast:
5	chr9:101925187..101925688-chr9:101946645..101947484,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000106803	Chromatin interaction
ENSG00000119523	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10114715	1.00[CEU][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10819641	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10988743	0.82[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10988744	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10988745	1.00[CEU][hapmap]
rs10988746	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10988749	1.00[CEU][hapmap]
rs12336513	1.00[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12336790	1.00[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12340839	1.00[CEU][hapmap]
rs12345762	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13440104	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs16918352	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59091994	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6478976	1.00[CEU][hapmap]
rs7022989	0.81[JPT][hapmap]
rs7872043	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs912248	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs912249	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.81[ASN][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	nsv831666	chr9:101874985-102018690	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS 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	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101931600-101947000	Weak transcription	Right Atrium	heart
2	chr9:101935200-101947200	Weak transcription	Gastric	stomach
3	chr9:101936600-101949600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr9:101941800-101946800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr9:101942200-101946800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr9:101943800-101946800	Weak transcription	Fetal Intestine Large	intestine
7	chr9:101944200-101946800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
8	chr9:101944200-101947200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:101944400-101946800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr9:101944400-101946800	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr9:101944400-101946800	Weak transcription	Thymus	Thymus
12	chr9:101944600-101946800	Weak transcription	Primary monocytes fromperipheralblood	blood
13	chr9:101944600-101949000	Enhancers	GM12878-XiMat	blood
14	chr9:101945000-101946800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr9:101945000-101946800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr9:101945000-101946800	Weak transcription	Primary B cells from cord blood	blood
17	chr9:101945000-101946800	Weak transcription	Osteobl	bone
18	chr9:101945400-101947000	Enhancers	Primary hematopoietic stem cells	blood
19	chr9:101945600-101946800	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr9:101945600-101946800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr9:101945600-101946800	Enhancers	Stomach Smooth Muscle	stomach
22	chr9:101945600-101947000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr9:101945800-101947000	Enhancers	Fetal Muscle Leg	muscle
24	chr9:101945800-101947400	Enhancers	Fetal Thymus	thymus
25	chr9:101945800-101947800	Enhancers	Primary hematopoietic stem cells short term culture	blood
26	chr9:101946000-101947000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:101946000-101947000	Enhancers	Fetal Muscle Trunk	muscle
28	chr9:101946000-101947000	Enhancers	HUVEC	blood vessel
29	chr9:101946200-101946800	Enhancers	Skeletal Muscle Male	skeletal muscle
30	chr9:101946200-101947000	Enhancers	NHDF-Ad	bronchial
31	chr9:101946200-101947200	Enhancers	HSMM	muscle
32	chr9:101946200-101949200	Weak transcription	Primary T cells from cord blood	blood
33	chr9:101946400-101946800	Enhancers	Muscle Satellite Cultured Cells	--
34	chr9:101946400-101947000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr9:101946400-101947000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr9:101946400-101947000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr9:101946400-101947000	Enhancers	Adipose Nuclei	Adipose
38	chr9:101946400-101947000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
39	chr9:101946400-101947000	Enhancers	Colonic Mucosa	Colon
40	chr9:101946400-101947000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
41	chr9:101946400-101947000	Enhancers	Fetal Intestine Small	intestine
42	chr9:101946400-101947000	Enhancers	Fetal Lung	lung
43	chr9:101946400-101947000	Enhancers	Skeletal Muscle Female	skeletal muscle
44	chr9:101946400-101947000	Enhancers	HSMMtube	muscle
45	chr9:101946400-101947000	Enhancers	NH-A	brain
46	chr9:101946400-101947200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr9:101946400-101947400	Enhancers	ES-I3 Cell Line	embryonic stem cell
48	chr9:101946400-101947400	Enhancers	H1 Cell Line	embryonic stem cell
49	chr9:101946400-101947600	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr9:101946400-101947600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links