Variant report

Variant	rs10419261
Chromosome Location	chr19:35764385-35764386
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:35763154..35765323-chr19:36201276..36203802,2	K562	blood:
2	chr19:35755149..35764508-chr19:35799437..35813142,44	MCF-7	breast:
3	chr19:35760160..35762171-chr19:35763556..35765228,2	K562	blood:

Variant related genes	Relation type
ENSG00000012124	Chromatin interaction
ENSG00000105698	Chromatin interaction
ENSG00000105695	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10405246	1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10410675	1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10414846	1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10419959	1.00[ASW][hapmap];0.85[CEU][hapmap];0.83[LWK][hapmap];0.89[MEX][hapmap];0.93[TSI][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10421096	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10421504	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10421599	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10421768	1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10424619	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1051995	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1052033	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12973672	1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12974791	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12975284	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12979058	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12979792	0.87[ASW][hapmap];1.00[CEU][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.96[TSI][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12981527	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12984022	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12985618	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12986033	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13345192	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.93[MKK][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2073899	0.87[ASW][hapmap];1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.96[TSI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2280744	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2280745	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2280747	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28365133	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28365136	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34832786	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35250673	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35497966	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35959789	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs564117	0.83[CEU][hapmap];0.82[TSI][hapmap]
rs62109572	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62112772	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71352913	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7256866	0.91[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8101606	1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers 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 miRNA target site	107 gene(s)	inside rSNPs	diseases
4	nsv510765	chr19:35708226-35890668	Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
5	esv2758497	chr19:35711078-35887113	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
6	esv2758758	chr19:35711078-35887113	Bivalent Enhancer Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	67 gene(s)	inside rSNPs	diseases
7	nsv911618	chr19:35734107-35807845	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
8	esv1836312	chr19:35741456-35786868	Enhancers Genic enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	n/a
9	nsv911619	chr19:35749563-35775441	Weak transcription Genic enhancers Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	n/a
10	nsv911620	chr19:35752917-35771382	Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	n/a
11	nsv911621	chr19:35752917-35772471	Active TSS Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	n/a
12	nsv911622	chr19:35752917-35773146	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	n/a
13	nsv911623	chr19:35752917-35775441	Flanking Active TSS Genic enhancers Active TSS Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	n/a
14	nsv911624	chr19:35759043-35771382	Strong transcription Genic enhancers Active TSS Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	n/a

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10419261	HNRNPUL1	cis	cerebellum	SCAN
rs10419261	SERTAD3	cis	cerebellum	SCAN
rs10419261	U2AF1L4	cis	lymphoblastoid	seeQTL
rs10419261	ZFP36	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:35761000-35764400	Genic enhancers	Primary B cells from peripheral blood	blood
2	chr19:35761000-35764400	Genic enhancers	Adipose Nuclei	Adipose
3	chr19:35761000-35765800	Genic enhancers	Placenta	Placenta
4	chr19:35761000-35770400	Weak transcription	HSMM	muscle
5	chr19:35761200-35764800	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr19:35761200-35765000	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr19:35761200-35765000	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
8	chr19:35761200-35765000	Strong transcription	NHLF	lung
9	chr19:35761200-35765400	Genic enhancers	Primary monocytes fromperipheralblood	blood
10	chr19:35761200-35765800	Strong transcription	Aorta	Aorta
11	chr19:35761200-35766600	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr19:35761200-35767800	Strong transcription	Osteobl	bone
13	chr19:35761200-35770200	Strong transcription	HUES48 Cell Line	embryonic stem cell
14	chr19:35761200-35770400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr19:35761200-35770400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr19:35761200-35770600	Strong transcription	Sigmoid Colon	Sigmoid Colon
17	chr19:35761200-35772200	Weak transcription	Psoas Muscle	Psoas
18	chr19:35761400-35764400	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr19:35761400-35764400	Genic enhancers	Skeletal Muscle Male	skeletal muscle
20	chr19:35761400-35764800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr19:35761400-35764800	Genic enhancers	Brain Hippocampus Middle	brain
22	chr19:35761400-35765000	Strong transcription	Esophagus	oesophagus
23	chr19:35761400-35765200	Strong transcription	NHEK	skin
24	chr19:35761400-35765400	Strong transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr19:35761400-35765600	Strong transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr19:35761400-35765800	Strong transcription	Fetal Lung	lung
27	chr19:35761400-35766000	Strong transcription	A549	lung
28	chr19:35761400-35767800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr19:35761400-35768200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
30	chr19:35761400-35768200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr19:35761400-35769200	Strong transcription	HUES64 Cell Line	embryonic stem cell
32	chr19:35761400-35769800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr19:35761400-35770000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
34	chr19:35761400-35770200	Strong transcription	H1 Cell Line	embryonic stem cell
35	chr19:35761400-35770200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
36	chr19:35761400-35770200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr19:35761400-35770400	Strong transcription	HUES6 Cell Line	embryonic stem cell
38	chr19:35761400-35770400	Strong transcription	Rectal Smooth Muscle	rectum
39	chr19:35761400-35770600	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr19:35761400-35770800	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr19:35761400-35770800	Strong transcription	Fetal Thymus	thymus
42	chr19:35761400-35771000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr19:35761400-35771000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
44	chr19:35761400-35771000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr19:35761400-35771000	Strong transcription	Brain Germinal Matrix	brain
46	chr19:35761400-35771200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr19:35761400-35772000	Strong transcription	Fetal Stomach	stomach
48	chr19:35761400-35775600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr19:35761600-35765400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr19:35761600-35765400	Strong transcription	Left Ventricle	heart

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