Variant report

Variant	rs1781871
Chromosome Location	chr19:21475298-21475299
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr19:21475211-21475553	K562	blood:	n/a	n/a

Variant related genes	Relation type
VN1R83P	TF binding region

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10426240	1.00[AMR][1000 genomes]
rs1500399	1.00[AMR][1000 genomes]
rs1612863	1.00[AMR][1000 genomes]
rs1613729	1.00[AMR][1000 genomes]
rs1617506	1.00[AMR][1000 genomes]
rs1618904	1.00[AMR][1000 genomes]
rs1619077	1.00[AMR][1000 genomes]
rs1620666	1.00[AMR][1000 genomes]
rs1620856	1.00[AMR][1000 genomes]
rs1630930	1.00[AMR][1000 genomes]
rs1645802	1.00[AMR][1000 genomes]
rs1645803	1.00[AMR][1000 genomes]
rs1645805	1.00[AMR][1000 genomes]
rs1678817	1.00[AMR][1000 genomes]
rs1678818	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1678819	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1678820	1.00[AMR][1000 genomes]
rs1678821	1.00[AMR][1000 genomes]
rs1678823	1.00[AMR][1000 genomes]
rs1678824	1.00[AMR][1000 genomes]
rs1678826	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1678827	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1678828	1.00[AMR][1000 genomes]
rs1678829	1.00[AMR][1000 genomes]
rs1678830	1.00[AMR][1000 genomes]
rs1762551	1.00[AMR][1000 genomes]
rs1762552	1.00[AMR][1000 genomes]
rs1762553	1.00[AMR][1000 genomes]
rs1762557	1.00[AMR][1000 genomes]
rs1762558	1.00[AMR][1000 genomes]
rs1762567	1.00[AMR][1000 genomes]
rs1762568	1.00[AMR][1000 genomes]
rs1762570	1.00[AMR][1000 genomes]
rs1762571	1.00[AMR][1000 genomes]
rs1762572	1.00[AMR][1000 genomes]
rs1762573	1.00[AMR][1000 genomes]
rs1762574	1.00[AMR][1000 genomes]
rs1762575	1.00[AMR][1000 genomes]
rs1762577	1.00[AMR][1000 genomes]
rs1762581	1.00[AMR][1000 genomes]
rs1762582	1.00[AMR][1000 genomes]
rs1762584	1.00[AMR][1000 genomes]
rs1762586	1.00[AMR][1000 genomes]
rs1762588	1.00[AMR][1000 genomes]
rs1762589	1.00[AMR][1000 genomes]
rs1762593	1.00[AMR][1000 genomes]
rs1781843	1.00[AMR][1000 genomes]
rs1781851	1.00[AMR][1000 genomes]
rs1781852	1.00[AMR][1000 genomes]
rs1781855	1.00[AMR][1000 genomes]
rs1781858	1.00[AMR][1000 genomes]
rs1781864	1.00[AMR][1000 genomes]
rs1781866	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1781868	1.00[AMR][1000 genomes]
rs1781869	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1781870	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1781876	1.00[AMR][1000 genomes]
rs1781877	1.00[AMR][1000 genomes]
rs1781878	1.00[AMR][1000 genomes]
rs1781881	1.00[AMR][1000 genomes]
rs1781885	1.00[AMR][1000 genomes]
rs1781889	1.00[AMR][1000 genomes]
rs1781891	1.00[AMR][1000 genomes]
rs1781892	1.00[AMR][1000 genomes]
rs1781894	1.00[AMR][1000 genomes]
rs2013529	1.00[AMR][1000 genomes]
rs2105448	1.00[AMR][1000 genomes]
rs2173725	1.00[AMR][1000 genomes]
rs2537688	1.00[AMR][1000 genomes]
rs2537694	1.00[AMR][1000 genomes]
rs2562418	1.00[AMR][1000 genomes]
rs2562423	1.00[AMR][1000 genomes]
rs2562426	1.00[AMR][1000 genomes]
rs2650761	1.00[AMR][1000 genomes]
rs2650762	1.00[AMR][1000 genomes]
rs2650765	1.00[AMR][1000 genomes]
rs2650795	1.00[AMR][1000 genomes]
rs2650813	1.00[AMR][1000 genomes]
rs2801870	1.00[AMR][1000 genomes]
rs28581819	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3385528	chr19:21030777-21495566	Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	esv3518033	chr19:21278465-21747567	Strong transcription Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	esv3518034	chr19:21278465-21747567	ZNF genes & repeats Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
4	esv3414204	chr19:21301761-21839451	ZNF genes & repeats Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
5	nsv578950	chr19:21388995-21477431	Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv911415	chr19:21388995-21487170	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv911416	chr19:21388995-21548211	Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
8	nsv911417	chr19:21388995-21564001	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv911419	chr19:21391844-21487170	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	esv3325271	chr19:21445407-21792817	Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
11	nsv911420	chr19:21454672-21613397	ZNF genes & repeats Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
12	esv2751783	chr19:21465822-21726337	Strong transcription ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21465000-21496000	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr19:21465400-21484600	ZNF genes & repeats	Liver	Liver
3	chr19:21467200-21489600	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr19:21470600-21484200	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
5	chr19:21471200-21479800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
6	chr19:21471600-21479800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr19:21472000-21476400	Weak transcription	Osteobl	bone
8	chr19:21472000-21481800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr19:21472200-21487600	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr19:21472200-21490400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr19:21472800-21475800	Weak transcription	HSMM	muscle
12	chr19:21473000-21476200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr19:21473200-21475800	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr19:21473200-21476000	Weak transcription	Psoas Muscle	Psoas
15	chr19:21473600-21479400	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr19:21473600-21479600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr19:21473600-21487200	Weak transcription	Right Ventricle	heart
18	chr19:21473800-21476600	Weak transcription	Stomach Smooth Muscle	stomach
19	chr19:21473800-21479600	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
20	chr19:21473800-21510400	Weak transcription	Fetal Heart	heart
21	chr19:21474000-21478800	ZNF genes & repeats	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr19:21474000-21479200	ZNF genes & repeats	Muscle Satellite Cultured Cells	--
23	chr19:21474000-21481600	ZNF genes & repeats	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr19:21474000-21490600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
25	chr19:21474200-21475600	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr19:21474200-21475800	Weak transcription	Fetal Kidney	kidney
27	chr19:21474200-21478200	ZNF genes & repeats	Fetal Brain Female	brain
28	chr19:21474200-21478600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
29	chr19:21474200-21479600	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
30	chr19:21474200-21480800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr19:21474200-21482000	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr19:21474400-21476000	Weak transcription	Brain Anterior Caudate	brain
33	chr19:21474400-21476000	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr19:21474400-21477400	Strong transcription	NH-A	brain
35	chr19:21474400-21478000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
36	chr19:21474400-21492400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr19:21474600-21475800	Weak transcription	Brain Substantia Nigra	brain
38	chr19:21474800-21476400	Weak transcription	Brain Angular Gyrus	brain
39	chr19:21474800-21476400	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr19:21474800-21476400	Weak transcription	Skeletal Muscle Female	skeletal muscle
41	chr19:21474800-21478000	Weak transcription	Ovary	ovary
42	chr19:21474800-21509800	Weak transcription	Fetal Brain Male	brain
43	chr19:21475000-21475400	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr19:21475000-21476200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr19:21475000-21476600	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr19:21475000-21480400	Weak transcription	Placenta	Placenta
47	chr19:21475200-21475800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
48	chr19:21475200-21475800	Weak transcription	HSMMtube	muscle
49	chr19:21475200-21476000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr19:21475200-21476000	Weak transcription	Brain Germinal Matrix	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links