Variant report

Variant	rs55785437
Chromosome Location	chr19:38471844-38471845
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr19:38420982..38422890-chr19:38471015..38472804,2	MCF-7	breast:
2	chr19:38421146..38425969-chr19:38469812..38473788,8	MCF-7	breast:
3	chr19:38471726..38473895-chr19:38475514..38478507,2	MCF-7	breast:
4	chr19:38470130..38474074-chr19:38479565..38484723,5	MCF-7	breast:
5	chr19:38429570..38433364-chr19:38470420..38473384,4	MCF-7	breast:
6	chr19:38459331..38461760-chr19:38470604..38472306,2	MCF-7	breast:
7	chr19:38464299..38466897-chr19:38471672..38473805,2	MCF-7	breast:
8	chr19:38394269..38398486-chr19:38470778..38473091,3	MCF-7	breast:
9	chr19:38395951..38398517-chr19:38469657..38472006,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000105738	Chromatin interaction
ENSG00000171804	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs17249336	0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs55752822	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55813548	0.85[AMR][1000 genomes]
rs55946812	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55974157	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs55983118	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs55994045	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56080901	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56207124	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56230664	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs56246446	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56251160	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56252444	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56300335	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56676595	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6508755	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7245962	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7257266	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7258011	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73034922	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73036634	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73036658	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs8100199	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[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	nsv949296	chr19:38034722-38763140	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs55785437	ZNF781	cis	Thyroid	GTEx
rs55785437	ZNF585A	Cis_1M	lymphoblastoid	RTeQTL
rs55785437	AC012309.5	cis	Esophagus Mucosa	GTEx
rs55785437	AC012309.5	cis	Thyroid	GTEx
rs55785437	AC012309.5	cis	Heart Left Ventricle	GTEx
rs55785437	AC012309.5	cis	Artery Tibial	GTEx

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:38461600-38472000	Weak transcription	NHDF-Ad	bronchial
2	chr19:38461600-38476600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr19:38461600-38493600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr19:38461600-38493600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr19:38461800-38476800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr19:38463600-38476000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr19:38463800-38476200	Weak transcription	Primary hematopoietic stem cells	blood
8	chr19:38463800-38484800	Weak transcription	Fetal Stomach	stomach
9	chr19:38466000-38472400	Weak transcription	Primary T cells from cord blood	blood
10	chr19:38466000-38475800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr19:38468000-38472000	Enhancers	Primary B cells from cord blood	blood
12	chr19:38468200-38473600	Enhancers	Lung	lung
13	chr19:38468200-38474200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr19:38468200-38474600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr19:38468200-38475600	Enhancers	HMEC	breast
16	chr19:38468200-38475800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr19:38468200-38483600	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr19:38468400-38473000	Enhancers	NH-A	brain
19	chr19:38468400-38473200	Enhancers	HSMM	muscle
20	chr19:38468800-38474000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr19:38469000-38474200	Enhancers	Fetal Intestine Large	intestine
22	chr19:38469200-38474800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr19:38469200-38479600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
24	chr19:38469800-38475800	Genic enhancers	Fetal Intestine Small	intestine
25	chr19:38470000-38472800	Enhancers	Brain Inferior Temporal Lobe	brain
26	chr19:38470200-38472000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
27	chr19:38470200-38472200	Enhancers	Duodenum Mucosa	Duodenum
28	chr19:38470200-38472200	Enhancers	Rectal Mucosa Donor 29	rectum
29	chr19:38470200-38472600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr19:38470200-38473200	Enhancers	Fetal Lung	lung
31	chr19:38470200-38474200	Enhancers	Sigmoid Colon	Sigmoid Colon
32	chr19:38470200-38474200	Enhancers	Stomach Mucosa	stomach
33	chr19:38470200-38474400	Enhancers	Rectal Mucosa Donor 31	rectum
34	chr19:38470400-38472200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr19:38470400-38472400	Enhancers	Brain Angular Gyrus	brain
36	chr19:38470400-38472600	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr19:38470400-38473600	Enhancers	Pancreas	Pancrea
38	chr19:38470400-38474400	Enhancers	Esophagus	oesophagus
39	chr19:38470400-38474800	Enhancers	Gastric	stomach
40	chr19:38470600-38472600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr19:38470600-38473200	Enhancers	HSMMtube	muscle
42	chr19:38470600-38476000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
43	chr19:38470800-38472400	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr19:38470800-38472400	Enhancers	A549	lung
45	chr19:38470800-38472600	Weak transcription	H1 Cell Line	embryonic stem cell
46	chr19:38470800-38473000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
47	chr19:38470800-38473600	Enhancers	Small Intestine	intestine
48	chr19:38470800-38474600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr19:38470800-38477200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr19:38470800-38494000	Weak transcription	Right Ventricle	heart

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