Variant report

Variant	rs11998900
Chromosome Location	chr9:103210592-103210593
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:103200752..103203739-chr9:103209963..103212371,2	K562	blood:
2	chr9:103209511..103211165-chr9:103211281..103213685,2	K562	blood:
3	chr9:103206264..103208362-chr9:103209837..103212549,2	MCF-7	breast:
4	chr9:103188382..103190819-chr9:103209723..103211869,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000066697	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11999630	1.00[AMR][1000 genomes]
rs12006000	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs57186650	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60526724	1.00[AFR][1000 genomes]
rs60896422	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv825012	chr9:103152205-103256281	Flanking Active TSS Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
3	nsv614955	chr9:103181596-103261227	ZNF genes & repeats Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103190400-103214200	Weak transcription	Thymus	Thymus
2	chr9:103190600-103214400	Weak transcription	Primary B cells from cord blood	blood
3	chr9:103190600-103224600	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr9:103190800-103213200	Weak transcription	Primary hematopoietic stem cells	blood
5	chr9:103190800-103217600	Weak transcription	Fetal Intestine Large	intestine
6	chr9:103191200-103214200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr9:103191600-103212800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr9:103191600-103213000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr9:103191600-103214400	Weak transcription	Esophagus	oesophagus
10	chr9:103191800-103217600	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr9:103191800-103228000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr9:103192000-103214000	Weak transcription	Colon Smooth Muscle	Colon
13	chr9:103192200-103210600	Weak transcription	Stomach Smooth Muscle	stomach
14	chr9:103192600-103213200	Weak transcription	Fetal Brain Male	brain
15	chr9:103193000-103214400	Weak transcription	Pancreas	Pancrea
16	chr9:103194600-103213200	Weak transcription	Lung	lung
17	chr9:103196200-103226400	Weak transcription	Psoas Muscle	Psoas
18	chr9:103197200-103211600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr9:103200000-103217000	Weak transcription	K562	blood
20	chr9:103201200-103215600	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr9:103201600-103215400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr9:103202000-103213400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr9:103202000-103215800	Weak transcription	Fetal Thymus	thymus
24	chr9:103202600-103213800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr9:103202800-103217400	Weak transcription	Right Ventricle	heart
26	chr9:103203800-103215600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr9:103203800-103217400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr9:103204000-103214000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr9:103204000-103216800	Strong transcription	Osteobl	bone
30	chr9:103204200-103211000	Strong transcription	NH-A	brain
31	chr9:103204200-103214000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr9:103204400-103212600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
33	chr9:103204600-103221200	Weak transcription	Fetal Kidney	kidney
34	chr9:103204800-103212800	Weak transcription	Adipose Nuclei	Adipose
35	chr9:103204800-103213200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr9:103204800-103213200	Weak transcription	Placenta	Placenta
37	chr9:103205000-103213000	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr9:103205000-103213600	Weak transcription	Primary B cells from peripheral blood	blood
39	chr9:103205000-103214200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr9:103205000-103214400	Weak transcription	Gastric	stomach
41	chr9:103205000-103216800	Weak transcription	Fetal Intestine Small	intestine
42	chr9:103206000-103217000	Weak transcription	Duodenum Mucosa	Duodenum
43	chr9:103206200-103212800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
44	chr9:103206200-103212800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr9:103206600-103210800	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr9:103206800-103213000	Weak transcription	Sigmoid Colon	Sigmoid Colon
47	chr9:103206800-103213200	Weak transcription	Fetal Brain Female	brain
48	chr9:103206800-103213800	Weak transcription	Primary neutrophils fromperipheralblood	blood
49	chr9:103206800-103214000	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr9:103206800-103216200	Weak transcription	Monocytes-CD14+_RO01746	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links