Variant report

Variant	rs11556389
Chromosome Location	chr9:137024293-137024294
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:137017573..137021072-chr9:137021184..137024307,5	K562	blood:
2	chr9:137014654..137017055-chr9:137022385..137024751,2	MCF-7	breast:
3	chr9:136999313..137005335-chr9:137022855..137025608,5	K562	blood:
4	chr9:137016596..137020478-chr9:137022526..137026259,4	K562	blood:
5	chr9:137013921..137016554-chr9:137022238..137026301,3	K562	blood:

Variant related genes	Relation type
ENSG00000196363	Chromatin interaction
ENSG00000273249	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11556388	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28377003	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28417688	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28490952	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28514622	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28537824	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28586903	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28654852	0.95[AFR][1000 genomes]
rs28670763	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28696205	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58268854	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894138	chr9:136839840-137093168	Strong transcription Genic enhancers Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv825148	chr9:136848471-137025632	Flanking Bivalent TSS/Enh Active TSS Strong transcription Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1048571	chr9:136872166-137265444	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv894148	chr9:136874066-137093168	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv894151	chr9:136887757-137397609	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
6	nsv894155	chr9:136969689-137364866	Active TSS Enhancers Bivalent Enhancer Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	43 gene(s)	inside rSNPs	diseases
7	esv1793302	chr9:136990615-137390602	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:137003600-137024800	Strong transcription	H9 Cell Line	embryonic stem cell
2	chr9:137004000-137024800	Strong transcription	Primary T cells from cord blood	blood
3	chr9:137004200-137024400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
4	chr9:137004200-137024800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
5	chr9:137004200-137024800	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr9:137004200-137025000	Strong transcription	HUES48 Cell Line	embryonic stem cell
7	chr9:137004200-137025000	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr9:137004200-137026000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
9	chr9:137004400-137024800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr9:137004400-137025800	Strong transcription	H1 Cell Line	embryonic stem cell
11	chr9:137004400-137025800	Strong transcription	Fetal Thymus	thymus
12	chr9:137004600-137024400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
13	chr9:137004600-137024600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr9:137004600-137024800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
15	chr9:137004600-137024800	Strong transcription	Gastric	stomach
16	chr9:137004600-137025000	Strong transcription	Placenta Amnion	Placenta Amnion
17	chr9:137004600-137025000	Strong transcription	Dnd41	blood
18	chr9:137004600-137025800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr9:137004600-137026000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr9:137004600-137026200	Strong transcription	Fetal Intestine Large	intestine
21	chr9:137004600-137026200	Strong transcription	Hela-S3	cervix
22	chr9:137004600-137026400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr9:137004800-137025000	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr9:137004800-137025000	Strong transcription	Fetal Brain Female	brain
25	chr9:137004800-137025600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr9:137004800-137026400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr9:137004800-137026400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr9:137005000-137024400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr9:137005000-137024400	Strong transcription	Rectal Smooth Muscle	rectum
30	chr9:137005000-137024600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr9:137005000-137024600	Strong transcription	Thymus	Thymus
32	chr9:137005000-137025000	Strong transcription	Cortex derived primary cultured neurospheres	brain
33	chr9:137005000-137025000	Strong transcription	Sigmoid Colon	Sigmoid Colon
34	chr9:137005000-137025200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr9:137005000-137025400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr9:137005000-137025600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
37	chr9:137005000-137026200	Strong transcription	Placenta	Placenta
38	chr9:137005000-137026400	Strong transcription	Brain Germinal Matrix	brain
39	chr9:137005200-137024400	Strong transcription	Duodenum Smooth Muscle	Duodenum
40	chr9:137005200-137024600	Strong transcription	Primary B cells from peripheral blood	blood
41	chr9:137005200-137024600	Strong transcription	Adipose Nuclei	Adipose
42	chr9:137005200-137024600	Strong transcription	Stomach Smooth Muscle	stomach
43	chr9:137005200-137024800	Strong transcription	Rectal Mucosa Donor 29	rectum
44	chr9:137005200-137025000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr9:137005200-137025000	Strong transcription	Left Ventricle	heart
46	chr9:137005200-137025000	Strong transcription	Right Ventricle	heart
47	chr9:137005200-137025600	Strong transcription	Lung	lung
48	chr9:137005200-137025800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr9:137005200-137026000	Strong transcription	Fetal Intestine Small	intestine
50	chr9:137005400-137024400	Strong transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links