Variant report

Variant	rs10965153
Chromosome Location	chr9:21834210-21834211
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:21827757..21830493-chr9:21833555..21836512,2	MCF-7	breast:
2	chr9:21832214..21835164-chr9:21835316..21836950,2	MCF-7	breast:
3	chr9:21830900..21838533-chr9:22079723..22086252,27	MCF-7	breast:
4	chr9:21831674..21838507-chr9:22079741..22086703,33	MCF-7	breast:
5	chr9:21834165..21837043-chr9:22102192..22103833,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10114559	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs10119568	0.84[ASN][1000 genomes]
rs10119693	0.83[ASN][1000 genomes]
rs10121449	0.91[ASN][1000 genomes]
rs10738601	0.85[ASN][1000 genomes]
rs10757257	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10811623	0.87[ASN][1000 genomes]
rs10811625	1.00[CHB][hapmap];0.80[JPT][hapmap];0.91[ASN][1000 genomes]
rs10811626	0.91[ASN][1000 genomes]
rs10811629	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10965128	0.81[ASN][1000 genomes]
rs10965134	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs10965135	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs10965141	0.87[ASN][1000 genomes]
rs10965143	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs10965144	0.95[CHB][hapmap];0.87[ASN][1000 genomes]
rs10965145	0.87[ASN][1000 genomes]
rs11523031	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11532907	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1345020	0.80[ASN][1000 genomes]
rs1414243	0.91[CHB][hapmap]
rs2165409	0.91[CHB][hapmap]
rs3900787	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs3922992	1.00[CHB][hapmap];0.80[JPT][hapmap];0.91[ASN][1000 genomes]
rs4615669	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs4977567	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4977733	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58377678	0.82[ASN][1000 genomes]
rs7022754	0.81[ASN][1000 genomes]
rs7023329	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs7023954	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs7049092	0.81[ASN][1000 genomes]
rs7863090	0.91[ASN][1000 genomes]
rs7863942	0.80[ASN][1000 genomes]
rs7868783	0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv8426	chr9:21763810-22176200	Weak transcription Strong transcription Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10965153	MTAP	cis	Muscle Skeletal	GTEx

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21804000-21838200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:21806600-21841200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr9:21809200-21836800	Weak transcription	Small Intestine	intestine
4	chr9:21814400-21837400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr9:21814400-21845200	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr9:21816400-21836600	Weak transcription	Psoas Muscle	Psoas
7	chr9:21817400-21837800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
8	chr9:21817800-21840600	Weak transcription	Colonic Mucosa	Colon
9	chr9:21818600-21840800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr9:21818800-21840400	Weak transcription	Right Ventricle	heart
11	chr9:21819400-21840400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr9:21819400-21841600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr9:21823800-21840400	Strong transcription	Fetal Muscle Leg	muscle
14	chr9:21824200-21840400	Strong transcription	Fetal Lung	lung
15	chr9:21825000-21840000	Strong transcription	Fetal Intestine Large	intestine
16	chr9:21825000-21840600	Strong transcription	Dnd41	blood
17	chr9:21825000-21841800	Strong transcription	Primary T cells from cord blood	blood
18	chr9:21825000-21841800	Strong transcription	Primary T cells fromperipheralblood	blood
19	chr9:21825200-21836600	Strong transcription	Fetal Stomach	stomach
20	chr9:21825200-21840200	Weak transcription	Pancreas	Pancrea
21	chr9:21825200-21840800	Strong transcription	Fetal Muscle Trunk	muscle
22	chr9:21825200-21841400	Strong transcription	Fetal Thymus	thymus
23	chr9:21825200-21842200	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr9:21825400-21834400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr9:21825400-21840400	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr9:21825400-21840600	Strong transcription	H1 Cell Line	embryonic stem cell
27	chr9:21825800-21838600	Weak transcription	Placenta Amnion	Placenta Amnion
28	chr9:21825800-21840200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
29	chr9:21825800-21840600	Strong transcription	HUES64 Cell Line	embryonic stem cell
30	chr9:21825800-21840600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr9:21826000-21838400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr9:21826000-21840800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
33	chr9:21827200-21834400	Strong transcription	Primary hematopoietic stem cells	blood
34	chr9:21828200-21838200	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr9:21828200-21838800	Strong transcription	Fetal Intestine Small	intestine
36	chr9:21828400-21837800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr9:21828800-21836000	Strong transcription	ES-I3 Cell Line	embryonic stem cell
38	chr9:21828800-21836800	Genic enhancers	NHEK	skin
39	chr9:21829400-21840000	Weak transcription	Spleen	Spleen
40	chr9:21829600-21834400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
41	chr9:21830400-21836200	Genic enhancers	HMEC	breast
42	chr9:21831000-21840600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr9:21831200-21838000	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr9:21831800-21834400	Enhancers	Primary B cells from peripheral blood	blood
45	chr9:21831800-21842000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr9:21832000-21840200	Strong transcription	Cortex derived primary cultured neurospheres	brain
47	chr9:21832200-21836600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr9:21832200-21840400	Strong transcription	Ovary	ovary
49	chr9:21832200-21842000	Strong transcription	Duodenum Mucosa	Duodenum
50	chr9:21832200-21852400	Weak transcription	Stomach Mucosa	stomach

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