Variant report

Variant	rs4919037
Chromosome Location	chr10:98344876-98344877
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:98336275..98339517-chr10:98344498..98348223,6	MCF-7	breast:
2	chr10:98331438..98333106-chr10:98343158..98345638,2	MCF-7	breast:
3	chr10:98344232..98346275-chr10:98354019..98356301,2	K562	blood:
4	chr10:98344586..98349024-chr10:98390080..98394763,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000077147	Chromatin interaction
ENSG00000155629	Chromatin interaction

Extended variants
information (count: 112 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10128106	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1018604	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1018605	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1051450	0.94[ASN][1000 genomes]
rs1063605	0.94[ASN][1000 genomes]
rs10736114	0.81[ASN][1000 genomes]
rs10882809	0.82[ASN][1000 genomes]
rs10882811	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882813	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882815	0.82[ASN][1000 genomes]
rs10882817	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10882821	0.88[ASN][1000 genomes]
rs10882822	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs10882827	0.81[ASN][1000 genomes]
rs10882828	0.81[ASN][1000 genomes]
rs11188809	0.82[ASN][1000 genomes]
rs11188810	0.82[ASN][1000 genomes]
rs11188811	0.82[ASN][1000 genomes]
rs11188813	0.82[ASN][1000 genomes]
rs11188814	0.82[ASN][1000 genomes]
rs11188815	0.82[ASN][1000 genomes]
rs11188817	0.82[ASN][1000 genomes]
rs11188821	0.82[ASN][1000 genomes]
rs11188822	0.82[ASN][1000 genomes]
rs11188825	0.82[ASN][1000 genomes]
rs11188827	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11188831	0.91[ASN][1000 genomes]
rs11188832	0.91[ASN][1000 genomes]
rs11188833	0.91[ASN][1000 genomes]
rs11188840	0.91[ASN][1000 genomes]
rs11188842	0.94[ASN][1000 genomes]
rs11188844	0.94[ASN][1000 genomes]
rs11188847	0.84[ASN][1000 genomes]
rs11188848	0.87[ASN][1000 genomes]
rs11188853	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11188854	0.81[EUR][1000 genomes]
rs1132913	0.82[ASN][1000 genomes]
rs1132914	0.82[ASN][1000 genomes]
rs1156035	0.82[ASN][1000 genomes]
rs1156036	0.82[ASN][1000 genomes]
rs11814010	0.82[ASN][1000 genomes]
rs12218847	0.82[ASN][1000 genomes]
rs12219275	0.91[ASN][1000 genomes]
rs12220047	0.91[ASN][1000 genomes]
rs12221143	0.82[ASN][1000 genomes]
rs12221262	0.82[ASN][1000 genomes]
rs12414612	0.82[ASN][1000 genomes]
rs12415048	0.82[ASN][1000 genomes]
rs12416646	0.82[ASN][1000 genomes]
rs12761817	0.82[ASN][1000 genomes]
rs12766248	0.82[ASN][1000 genomes]
rs12775533	0.88[ASN][1000 genomes]
rs12776810	0.94[ASN][1000 genomes]
rs12779720	0.82[ASN][1000 genomes]
rs1324255	0.82[ASN][1000 genomes]
rs1324256	0.91[ASN][1000 genomes]
rs1324259	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1324261	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1408367	0.91[ASN][1000 genomes]
rs17391547	0.82[ASN][1000 genomes]
rs17482382	0.82[ASN][1000 genomes]
rs2011190	0.82[ASN][1000 genomes]
rs2025451	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2031326	0.91[ASN][1000 genomes]
rs2031329	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2861555	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs33964467	0.88[ASN][1000 genomes]
rs35779764	0.88[ASN][1000 genomes]
rs36098523	0.87[ASN][1000 genomes]
rs3689	0.82[ASN][1000 genomes]
rs3748234	0.81[ASN][1000 genomes]
rs3748236	0.85[ASN][1000 genomes]
rs3748237	0.94[ASN][1000 genomes]
rs3789957	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3789958	0.82[ASN][1000 genomes]
rs3818389	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4146727	0.81[ASN][1000 genomes]
rs4485036	0.82[ASN][1000 genomes]
rs4534508	0.82[ASN][1000 genomes]
rs4917742	0.81[ASN][1000 genomes]
rs4919029	0.91[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4919032	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58305369	0.87[ASN][1000 genomes]
rs61858194	0.88[ASN][1000 genomes]
rs61858494	0.82[ASN][1000 genomes]
rs61859300	0.94[ASN][1000 genomes]
rs7069429	0.82[ASN][1000 genomes]
rs7070686	0.94[ASN][1000 genomes]
rs7071044	0.94[ASN][1000 genomes]
rs7071224	0.82[ASN][1000 genomes]
rs7071881	0.94[ASN][1000 genomes]
rs7073017	0.87[ASN][1000 genomes]
rs7073682	0.87[ASN][1000 genomes]
rs7074516	0.94[ASN][1000 genomes]
rs7082873	0.91[ASN][1000 genomes]
rs7085389	0.94[ASN][1000 genomes]
rs7086213	0.94[ASN][1000 genomes]
rs7086240	0.82[ASN][1000 genomes]
rs7087478	0.82[ASN][1000 genomes]
rs7091606	0.87[ASN][1000 genomes]
rs7097291	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7101320	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs713251	0.82[ASN][1000 genomes]
rs727329	0.82[ASN][1000 genomes]
rs7448	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7919739	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs8578	0.94[ASN][1000 genomes]
rs927639	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9633703	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9664749	0.82[ASN][1000 genomes]
rs9664955	0.82[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	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4919037	NPM1P26	cis	Esophagus Muscularis	GTEx
rs4919037	NPM1P26	cis	Stomach	GTEx
rs4919037	NPM1P26	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98286600-98345600	Weak transcription	Esophagus	oesophagus
2	chr10:98314400-98345600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr10:98324600-98345000	Weak transcription	Fetal Kidney	kidney
4	chr10:98329200-98345000	Weak transcription	Fetal Stomach	stomach
5	chr10:98329200-98345600	Weak transcription	Gastric	stomach
6	chr10:98329800-98345200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr10:98331800-98345200	Weak transcription	Fetal Brain Male	brain
8	chr10:98332200-98345400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr10:98334800-98345600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr10:98336200-98345200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
11	chr10:98336400-98345200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr10:98336400-98345600	Weak transcription	Fetal Muscle Trunk	muscle
13	chr10:98336600-98345000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr10:98336800-98345000	Enhancers	Primary T helper cells fromperipheralblood	blood
15	chr10:98336800-98345200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr10:98340600-98345200	Enhancers	Brain Hippocampus Middle	brain
17	chr10:98341400-98345200	Enhancers	Primary T killer memory cells from peripheral blood	blood
18	chr10:98341600-98345000	Enhancers	Hela-S3	cervix
19	chr10:98341600-98345200	Enhancers	Adipose Nuclei	Adipose
20	chr10:98341600-98345200	Enhancers	Brain Anterior Caudate	brain
21	chr10:98342000-98345000	Weak transcription	HUES64 Cell Line	embryonic stem cell
22	chr10:98342000-98345200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr10:98342000-98345400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr10:98342200-98345200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr10:98342200-98345200	Weak transcription	Colon Smooth Muscle	Colon
26	chr10:98342400-98345000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr10:98342400-98345000	Weak transcription	Fetal Heart	heart
28	chr10:98342400-98345000	Weak transcription	Rectal Smooth Muscle	rectum
29	chr10:98342600-98345400	Enhancers	Primary monocytes fromperipheralblood	blood
30	chr10:98343000-98345000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
31	chr10:98343000-98345200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr10:98343200-98345200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
33	chr10:98343200-98345200	Weak transcription	Fetal Brain Female	brain
34	chr10:98343400-98345000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr10:98343400-98345000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
36	chr10:98343400-98345000	Weak transcription	Thymus	Thymus
37	chr10:98343400-98345200	Enhancers	Fetal Lung	lung
38	chr10:98343400-98345600	Enhancers	Primary neutrophils fromperipheralblood	blood
39	chr10:98343600-98345200	Weak transcription	Ovary	ovary
40	chr10:98343600-98345400	Weak transcription	Stomach Mucosa	stomach
41	chr10:98343800-98345200	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr10:98343800-98345400	Enhancers	Primary B cells from peripheral blood	blood
43	chr10:98343800-98345400	Enhancers	Cortex derived primary cultured neurospheres	brain
44	chr10:98343800-98345400	Enhancers	Colonic Mucosa	Colon
45	chr10:98343800-98345400	Flanking Active TSS	HUVEC	blood vessel
46	chr10:98344000-98345000	Weak transcription	Brain Cingulate Gyrus	brain
47	chr10:98344000-98345000	Enhancers	Osteobl	bone
48	chr10:98344000-98345200	Enhancers	Primary B cells from cord blood	blood
49	chr10:98344000-98345200	Weak transcription	Brain Angular Gyrus	brain
50	chr10:98344000-98345400	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links